Genes and enzymes for the production of adipic acid intermediates

ABSTRACT

Two gene clusters have been isolated from an Brevibacterium sp HCU that encode the enzymes expected to convert cyclohexanol to adipic acid. Individual open reading frames (ORF&#39;s) on each gene cluster are useful for the production of intermediates in the adipic acid biosynthetic pathway or of related molecules. All the ORF&#39;s have been sequenced. Identification of gene function has been made on the basis of sequence comparison and biochemical analysis.

[0001] This application claims the benefit of U.S. Provisional Application No. 60/120,702, filed Feb. 19, 1999.

FIELD OF THE INVENTION

[0002] The invention relates to the field of molecular biology and microbiology. More specifically, genes have been isolated from Brevibacterium sp HCU and sequences that encode for enzymes useful for production of intermediates in the adipic acid biosynthetic pathway or for the production of related molecules.

BACKGROUND OF THE INVENTION

[0003] Production of adipic acid in the U.S. was 1.96 billion pounds in 1997 with an estimated 2.0 billion pounds in 1998. Historically the demand for adipic acid has grown 2% per year and 1.5-2% is expected through the year 2002. Adipic acid consistently ranks as one of the top fifty chemicals produced domestically. Nearly 90% of domestic adipic acid is used to produce nylon-6,6. Other uses of adipic acid include production of lubricants and plasticizers, and as a food acidulant.

[0004] The dominant industrial process for synthesizing adipic acid employs initial air oxidation of cyclohexane to yield a mixture of cyclohexanone (ketone) and cyclohexanol (alcohol), which is designated KA (see for example U.S. Pat. No. 5,221,800). Hydrogenation of phenol to yield KA is also used commercially, although this process accounts for just 2% of all adipic acid production. KA produced via both methods is oxidized with nitric acid to produce adipic acid. Reduced nitrogen oxides including NO₂, NO, and N₂O are produced as by-products and are recycled back to nitric acid at varying levels.

[0005] Research has also focused on synthesis of adipic acid from alternative feedstocks. Significant attention has been directed at carbonylation of butadiene (U.S. Pat. No. 5,166,421). More recently, a method of dimerizing methyl acrylates was reported, opening up the possibility of adipic acid synthesis from C-3 feedstocks.

[0006] These processes are not entirely desirable due to their heavy reliance upon environmentally sensitive feedstocks, and their propensity to yield undesirable by-products. Non-synthetic, biological routes to adipic acid would be more advantageous to industry and beneficial to the environment.

[0007] A number of microbiological routes are known. Wildtype and mutant organisms have been shown to convert renewable feedstocks such as glucose and other hydrocarbons to adipic acid [Frost, John, Chem. Eng. (Rugby, Engl.) (1996), 611, 32-35; WO 9507996; Steinbuechel, AlexanderCLB Chem. Labor Biotech. (1995), 46(6), 277-8; Draths et al., ACS Symp. Ser. (1994), 577 (Benign by Design), 32-45; U.S. Pat. No. 4,400,468; JP 49043156 B4; and DE 2140133]. Similarly, organisms possessing nitrilase activity have been shown to convert nitriles to carboxylic acids including adipic acid [Petre et al., AU 669951; CA 2103616].

[0008] Additionally, wildtype organisms have been used to convert cyclohexane and cyclohexanol and other alcohols to adipic acid [JP 01023894 A2; Cho, Takeshi et al., Bio Ind. (1991), 8(10), 671-8; Horiguchi et al., JP 01023895 A2; JP 01023894 A2; JP 61128890 A; Hasegawa et al., Biosci., Biotechnol., Biochem. (1992), 56(8), 1319-20; Yoshizako et al., J. Ferment. Bioeng. (1989), 67(5), 335-8; Kim et al., Sanop Misaengmul Hakhoechi (1985), 13(1), 71-7; Donoghue et al., Eur. J Biochem. (1975), 60(1), 1-7].

[0009] One enzymatic pathway for the conversion of cyclohexanol to adipic acid has been suggested as including the intermediates cyclohexanol, cyclohexanone, 2-hydroxycyclohexanone, ε-caprolactone, 6-hydroxycaproic acid, and adipic acid. Some specific enzyme activities in this pathway have been demonstrated, including cyclohexanol dehydrogenase, NADPH-linked cyclohexanone oxygenase, ε-caprolactone hydrolase, and NAD (NADP)-linked 6-hydroxycaproic acid dehydrogenase (Tanaka et al., Hakko Kogaku Kaishi (1977), 55(2), 62-7). An alternate enzymatic pathway has been postulated to comprise cyclohexanol→cyclohexanone→1-oxa-2-oxocycloheptane→6-hydroxyhexanoate→6-oxohexanoate→adipate [Donoghue et al., Eur. J. Biochem. (1975), 60(1), 1-7]. The literature is silent on the specific gene sequences encoding the cyclohexanol to adipic acid pathway, with the exception of the monoxygenase, responsible for the conversion of cyclohexanone to caprolactone, [Chen,et al., J. Bacteriol., 170, 781-789 (1988)].

[0010] The problem to be solved, therefore is to provide a synthesis route for adipic acid which not only avoids reliance on environmentally sensitive starting materials but also makes efficient use of inexpensive, renewable resources. It would further be desirable to provide a synthesis route for adipic acid which avoids the need for significant energy inputs and which minimizes the formation of toxic by-products.

[0011] Applicants have solved the stated problem by identifying, isolating and cloning a two unique monooxygenase genes, a hydrolase gene, a hydroxycaproate dehydrogenase gene, a cyclohexanol dehydrogenase gene and a gene encoding an acyl-CoA dehydrogenase, all implicated in the adipic acid biosynthetic pathway.

SUMMARY OF THE INVENTION

[0012] The invention provides an isolated nucleic acid fragment encoding an adipic acid synthesizing protein selected from the group consisting of: (a) an isolated nucleic acid molecule encoding the amino acid sequence set forth in SEQ ID NO:2, SEQ ID NO:4, SEQ ID NO:6, SEQ ID NO:8, SEQ ID NO:12, SEQ ID NO:14, SEQ ID NO:18, SEQ ID NO:20, SEQ ID NO:22, and SEQ ID NO:24; (b) an isolated nucleic acid molecule that hybridizes with (a) under the following hybridization conditions: 0.1× SSC, 0.1% SDS at 65° C.; and washed with 2× SSC, 0.1% SDS followed by 0.1× SSC, 0.1% SDS; (c) an isolated nucleic acid molecule that is completely complementary to (a) or (b).

[0013] In another embodiment the invention provides methods for the isolation of nucleic acid fragments substantially similar to those encoding the polypeptides as set forth in SEQ ID NO:2, SEQ ID NO:4, SEQ ID NO:6, SEQ ID NO:8, SEQ ID NO:12, SEQ ID NO:14, SEQ ID NO:18, SEQ ID NO:20, SEQ ID NO:22, and SEQ ID NO:24 based on the partial sequence of the nucleic acid fragments.

[0014] The invention further provides a method for the production of adipic acid comprising: contacting a transformed host cell under suitable growth conditions with an effective amount of cyclohexanol whereby adipic acid is produced, the transformed host cell containing the nucleic acid fragments as set forth in SEQ ID NO:15 and SEQ ID NO:16.

[0015] The invention additionally provides methods for the production of intermediates in the pathway for the synthesis of adipic acid from cyclohexanol comprising transformed organisms transformed with any one of the open reading frames encoding SEQ ID NO:4, SEQ ID NO:6, SEQ ID NO:8, SEQ ID NO:12, SEQ ID NO:14, SEQ ID NO:18, and SEQ ID NO:22.

[0016] Additionally the invention provides for recombinant cells transformed with any gene encoding the polypeptides selected from the group consisting of SEQ ID NO:4, SEQ ID NO:6, SEQ ID NO:8, SEQ ID NO:12, SEQ ID NO:14, SEQ ID NO:18, SEQ ID NO:22, and SEQ ID NO:24.

[0017] The invention further provides an isolated Brevibacterium sp HCU containing the genes required for the production of adipic acid intermediates as identified by its 16s rDNA profile.

BRIEF DESCRIPTION OF THE DRAWINGS, SEQUENCE DESCRIPTIONS AND BIOLOGICAL DEPOSITS

[0018]FIG. 1 is a diagram showing the pathway for the conversion of cyclohexanol to adipic acid, and the corresponding ORF's encoding the relevant enzymes.

[0019]FIG. 2 is a diagram showing the organization of the two gene clusters containing ORF's relevant in the adipic acid biosynthetic pathway.

[0020]FIG. 3 is a digitized image of an acrylamide gel showing the purification of two Brevibacterium monooxygenases expressed in E. coli.

[0021]FIG. 4 is a plot of the spectrophotometric assay of the oxidation of cyclohexanone by one of monooxygenase 1.

[0022]FIG. 5 is a plot showing the timecourse of degradation of cyclohexanone by E. coli strains expressing the Brevibacterium monooxygenase 1 or monooxygenase 2.

[0023]FIG. 6 is a digitized image of the hydroxycaproate dehydrogenase activity stain of an acrylamide gel of cell extract of E. coli expressing ORF 2.2.

[0024]FIG. 7 is a digitized image of the cyclohexanol dehydrogenase activity stain of an acrylamide gel of cell extract of E. coli expressing ORF 2.2.

[0025]FIG. 8 is a digitized image of the hydroxycaproate dehydrogenase activity stain of an acrylamide gel of cell extract of E. coli expressing ORF 1.4.

[0026] The invention can be more fully understood from the following detailed description and the accompanying sequence descriptions which form a part of this application.

[0027] The following sequence descriptions and sequences listings attached hereto comply with the rules governing nucleotide and/or amino acid sequence disclosures in patent applications as set forth in 37 C.F.R. §1.821-1.825. The Sequence Descriptions contain the one letter code for nucleotide sequence characters and the three letter codes for amino acids as defined in conformity with the IUPAC-IYUB standards described in Nucleic Acids Research 13:3021-3030 (1985) and in the Biochemical Journal 219 (No. 2):345-373 (1984) which are herein incorporated by reference. The symbols and format used for nucleotide and amino acid sequence data comply with the rules set forth in 37 C.F.R. §1.822.

[0028] SEQ ID NO:1 is the nucleotide sequence of ORF 1.1 isolated from gene cluster 1 (GC-1) from Brevibacterium sp HCU and encoding a regulator element, the element being most similar to a transcription factor.

[0029] SEQ ID NO:2 is deduced amino acid sequence of ORF 1.1, encoded by SEQ ID NO:1.

[0030] SEQ ID NO:3 is the nucleotide sequence of ORF 1.2 isolated from gene cluster 1 (GC-1) from Brevibacterium sp HCU and encoding a hydrolase enzyme, the enzyme being most similar to a Streptomyces acetyl-hydrolase.

[0031] SEQ ID NO:4 is the deduced amino acid sequence of ORF 1.2, encoded by SEQ ID NO:3.

[0032] SEQ ID NO:5 is the nucleotide sequence of ORF 1.3 isolated from gene cluster 1 (GC-1) from Brevibacterium sp HCU and encoding a monooxygenase enzyme, the enzyme being most similar to an Acinetobacter monooxygenase.

[0033] SEQ ID NO:6 is the deduced amino acid sequence of ORF 1.3, encoded by SEQ ID NO:5.

[0034] SEQ ID NO:7 is the nucleotide sequence of ORF 1.4 isolated from gene cluster 1 (GC-1) from Brevibacterium sp HCU and encoding an alcohol dehydrogenase, the enzyme being most similar to an Bacillus methanol dehydrogenase.

[0035] SEQ ID NO:8 is the deduced amino acid sequence of ORF 1.4, encoded by SEQ ID NO:7.

[0036] SEQ ID NO:9 is the nucleotide sequence of ORF 1.5 isolated from gene cluster 1 (GC-1) from Brevibacterium sp HCU and encoding a hydroxyacyl CoA dehydrogenase, the enzyme being most similar to an Archaeoglobus 3-hydroxyacyl CoA dehydrogenase.

[0037] SEQ ID NO:10 is the deduced amino acid sequence of ORF 1.5, encoded by SEQ ID NO:9.

[0038] SEQ ID NO:11 is the nucleotide sequence of ORF 1.6 isolated from gene cluster 1 (GC-1) from Brevibacterium sp HCU and encoding an alcohol dehydrogenase, the enzyme being most similar to an Sphingomonas 2,5-Dichloro-2,5-cyclohexadiene1,4-diol dehydrogenase.

[0039] SEQ ID NO:12 is the deduced amino acid sequence of ORF 1.6, encoded by SEQ ID NO:11.

[0040] SEQ ID NO:13 is the nucleotide sequence of ORF 1.7 isolated from gene cluster 1 (GC-1) from Brevibacterium sp HCU and encoding an alcohol dehydrogenase, the enzyme being most similar to an Streptomyces beta-hydroxy-steroid dehydrogenase.

[0041] SEQ ID NO:14 is the deduced amino acid sequence of ORF 1.7, encoded by SEQ ID NO:13, where the N-terminal sequence is highly similar to that of the cyclohexanol dehydrogenase from Arthrobacter (Cho, Takeshi et al.,Bio Ind. (1991), 8(10), 671-8).

[0042] SEQ ID NO:15 is the complete nucleotide sequence of gene cluster 1 isolated from gene from Brevibacterium sp HCU.

[0043] SEQ ID NO:16 is the complete nucleotide sequence of gene cluster 2 isolated from gene from Brevibacterium sp HCU.

[0044] SEQ ID NO:17 is the nucleotide sequence of ORF 2.2 isolated from gene cluster 2 (GC-2) from Brevibacterium sp HCU and encoding an alcohol dehydrogenase, the enzyme being most similar to an Sulfolobus alcohol dehydrogenase.

[0045] SEQ ID NO:18 is the deduced amino acid sequence of ORF 2.2, encoded by SEQ ID NO:17.

[0046] SEQ ID NO:19 is the nucleotide sequence of ORF 2.3 isolated from gene cluster 2 (GC-2) from Brevibacterium sp HCU and encoding a regulator gene, the gene product being most similar to an a transciption factor.

[0047] SEQ ID NO:20 is the deduced amino acid sequence of ORF 2.3, encoded by SEQ ID NO:19.

[0048] SEQ ID NO:21 is the nucleotide sequence of ORF 2.4 isolated from gene cluster 2 (GC-2) from Brevibacterium sp HCU and encoding a monooxygenase, the enzyme being most similar to an Rhodococcus monooxygenase.

[0049] SEQ ID NO:22 is the deduced amino acid sequence of ORF 2.4, encoded by SEQ ID NO:20.

[0050] SEQ ID NO:23 is the nucleotide sequence of ORF 2.5 isolated from gene cluster 2 (GC-2) from Brevibacterium sp HCU and encoding a small transcriptional regulator which has homology to the ArsR family of regulators.

[0051] SEQ ID NO:24 is the deduced amino acid sequence of ORF 2.5, encoded by SEQ ID NO:23.

[0052] SEQ ID NO:25 is the nucleotide sequence of ORF 2.6 isolated from gene cluster 2 (GC-2) from Brevibacterium sp HCU and encoding a oxidoreductatse, the enzyme being most similar to an Bacillus NADH-dependent flavin oxidoreductase.

[0053] SEQ ID NO:26 is the deduced amino acid sequence of ORF 2.6, encoded by SEQ ID NO:25.

[0054] SEQ ID NO:27 is the nucleotide sequence of ORF 2.7 isolated from gene cluster 2 (GC-2) from Brevibacterium sp HCU and encoding an unknown protein.

[0055] SEQ ID NO's:28-44 correspond to primers used to amplify and clone genes and for 16s RNA identification of the Brevibacterium sp HCU.

[0056] SEQ ID NO's:45-48 are PCR primers used to amplify various ORF's for expression studies.

[0057] SEQ ID NO:49 is the 16s rDNA sequence of the isolated Brevibacterium sp HCU having GC-1 or GC-2.

DETAILED DESCRIPTION OF THE INVENTION

[0058] The present invention provides new sequences encoding key enzymes in the synthesis of adipic acid from cyclohexanol. The genes and their expression products are useful for the creation of recombinant organisms that have the ability to produce adipic acid while growing on cyclohexanol or intermediates in this oxidation pathway, and for the identification of new species of bacteria having the ability to produce adipic acid. Full length sequence for 14 ORF's from two separate gene clusters have been obtained. Eleven have been identified by comparison to public databases containing nucleotide and protein sequences using the BLAST algorithms well known to those skilled in the art. Seven of the relevant ORF's all reside on a single gene cluster termed here “gene cluster 1” or “GC-1”. This cluster contains ORF's 1.1-1.7. Gene cluster 2 (GC-2) also contains 7 ORF's, identified as 2.1-2.7.

[0059] In this disclosure, a number of terms and abbreviations are used. The following definitions are provided.

[0060] “Open reading frame” is abbreviated ORF.

[0061] “Polymerase chain reaction” is abbreviated PCR.

[0062] “High performance liquid chromatography” is abbreviated HPLC.

[0063] “Gas chromatography” is abbreviated GC.

[0064] “Mass spectrometry” is abbreviated MS.

[0065] “High performance liquid chromatography coupled with mass spectrometry” is abbreviated LC/MS.

[0066] The term “cycloalkanone derivative” refers to any molecule containing a complete oxidized or derivatized cycloalkanone substructure, including but not limited to cyclobutanone, cyclopentanone, cyclohexanone, 2-methylcyclopentanone, 2-methylcyclohexanone, cyclohex-2-ene-1-one, 2-(cyclohex-1-enyl)cyclohexanone, 1,2-cyclohexanedione, 1,3-cyclohexanedione, and 1,4-cyclohexanedione.

[0067] “HCU” is the abbreviation for “Halophilic Cyclohexanol Utilizer” and is used to identify the unique Brevibacterium sp. strain of the instant invention.

[0068] The term “adipic acid biosynthetic pathway” will mean and enzyme mediated conversion of cyclohexanol to adipic acid comprising the conversion of:

[0069] (1) cyclohexanol to cyclohexanone via cyclohexanol dehydrogenase,

[0070] (2) cyclohexanone to ε-caprolactone via cyclohexanone monooxygenase

[0071] (3) ε-caprolactone to 6-hydroxy hexanoic acid via caprolactone hydrolase,

[0072] (4) 6-hydroxy hexanoic acid to 6-aldehyde hexanoic acid via 6-hydroxy hexanoic acid dehydrogenase, (5) 6-aldehyde hexanoic acid to adipic acid via 6-aldehyde hexanoic acid dehydrogenase.

[0073] “Regulator” as used herein refers to a protein that modifies the transcription of a set of genes under its control.

[0074] “Cyclohexanol dehydrogenase” refers to an enzyme that catalyzes the conversion of cyclohexanol to cyclohexanone. Within the context of the present invention this enzyme is encoded by ORF 1.6 or ORF 1.7 resident on GC-1.

[0075] “Cyclohexanone monooxygenase” refers to an enzyme that catalyzes the conversion of cyclohexanone to ε-caprolactone. Within the context of the present invention this enzyme is encoded by one of two ORF's, ORF 1.3 (resident on GC-1) or ORF 2.4 (resident on GC-2).

[0076] “Caprolactone hydrolase” refers to an enzyme that catalyzes the conversion of caprolactone to 6-alcohol hexanoic acid. Within the context of the present invention this enzyme is encoded by ORF 1.2 and is resident on GC-1.

[0077] “6-hydroxy hexanoic acid dehydrogenase” refers to an enzyme that catalyzes the conversion of 6-hydroxy hexanoic acid to 6-aldehyde hexanoic acid. Within the context of the present invention this enzyme is encoded by ORF 2.2 and is resident on GC-2.

[0078] The term “gene cluster” will mean genes organized in a single expression unit or in close proximity on the chromosome.

[0079] The term “Gene cluster 1” or “GC-1” refers to the 10.6 kb gene cluster comprising ORF's 1.1.-1.7 useful in generating intermediates in the adipic acid biosynthetic pathway.

[0080] The term “Gene cluster 2” or “GC-2” refers to the 11.5 kb gene cluster comprising ORF 2.1-2.7, useful in generating intermediates in the adipic acid biosynthetic pathway.

[0081] As used herein, an “isolated nucleic acid fragment” is a polymer of RNA or DNA that is single- or double-stranded, optionally containing synthetic, non-natural or altered nucleotide bases. An isolated nucleic acid fragment in the form of a polymer of DNA may be comprised of one or more segments of cDNA, genomic DNA or synthetic DNA.

[0082] The term “adipic acid synthesizing protein” means the gene product of any of the sequences set forth in SEQ ID NO:1, SEQ ID NO:3, SEQ ID NO:5, SEQ ID NO:7, SEQ ID NO:9, SEQ ID NO:11, SEQ ID NO:13, SEQ ID NO:17, SEQ ID NO:19, SEQ ID NO:21, SEQ ID NO:23, and SEQ ID NO:25.

[0083] As used herein, “substantially similar” refers to nucleic acid fragments wherein changes in one or more nucleotide bases results in substitution of one or more amino acids, but do not affect the functional properties of the protein encoded by the DNA sequence. “Substantially similar” also refers to nucleic acid fragments wherein changes in one or more nucleotide bases does not affect the ability of the nucleic acid fragment to mediate alteration of gene expression by antisense or co-suppression technology. “Substantially similar” also refers to modifications of the nucleic acid fragments of the instant invention such as deletion or insertion of one or more nucleotide bases that do not substantially affect the functional properties of the resulting transcript. It is therefore understood that the invention encompasses more than the specific exemplary sequences.

[0084] For example, it is well known in the art that alterations in a gene which result in the production of a chemically equivalent amino acid at a given site, but do not effect the functional properties of the encoded protein are common. Thus, a codon for the amino acid alanine, a hydrophobic amino acid, may be substituted by a codon encoding another less hydrophobic residue (such as glycine) or a more hydrophobic residue (such as valine, leucine, or isoleucine). Similarly, changes which result in substitution of one negatively charged residue for another (such as aspartic acid for glutamic acid) or one positively charged residue for another (such as lysine for arginine) can also be expected to produce a functionally equivalent product. Nucleotide changes which result in alteration of the N-terminal and C-terminal portions of the protein molecule would also not be expected to alter the activity of the protein. Each of the proposed modifications is well within the routine skill in the art, as is determination of retention of biological activity of the encoded products. Moreover, the skilled artisan recognizes that substantially similar sequences encompassed by this invention are also defined by their ability to hybridize, under stringent conditions (0.1× SSC, 0.1% SDS, 65° C. and washed with 2× SSC, 0.1% SDS followed by 0.1× SSC, 0.1% SDS), with the sequences exemplified herein. Preferred substantially similar nucleic acid fragments of the instant invention are those nucleic acid fragments whose DNA sequences are at least 80% identical to the DNA sequence of the nucleic acid fragments reported herein. More preferred nucleic acid fragments are at least 90% identical to the DNA sequence of the nucleic acid fragments reported herein. Most preferred are nucleic acid fragments that are at least 95% identical to the DNA sequence of the nucleic acid fragments reported herein.

[0085] A nucleic acid molecule is “hybridizable” to another nucleic acid molecule, such as a cDNA, genomic DNA, or RNA, when a single stranded form of the nucleic acid molecule can anneal to the other nucleic acid molecule under the appropriate conditions of temperature and solution ionic strength. Hybridization and washing conditions are well known and exemplified in Sambrook, J., Fritsch, E. F. and Maniatis, T. Molecular Cloning: A Laboratory Manual, Second Edition, Cold Spring Harbor Laboratory Press, Cold Spring Harbor (1989), particularly Chapter 11 and Table 11.1 therein (entirely incorporated herein by reference). The conditions of temperature and ionic strength determine the “stringency” of the hybridization. For preliminary screening for homologous nucleic acids, low stringency hybridization conditions, corresponding to a Tm of 55°, can be used, e.g., 5× SSC, 0.1% SDS, 0.25% milk, and no formamide; or 30% formamide, 5× SSC, 0.5% SDS. Moderate stringency hybridization conditions correspond to a higher Tm, e.g., 40% formamide, with 5× or 6× SSC. Hybridization requires that the two nucleic acids contain complementary sequences, although depending on the stringency of the hybridization, mismatches between bases are possible. The appropriate stringency for hybridizing nucleic acids depends on the length of the nucleic acids and the degree of complementation, variables well known in the art. The greater the degree of similarity or homology between two nucleotide sequences, the greater the value of Tm for hybrids of nucleic acids having those sequences. The relative stability (corresponding to higher Tm) of nucleic acid hybridizations decreases in the following order: RNA:RNA, DNA:RNA, DNA:DNA. For hybrids of greater than 100 nucleotides in length, equations for calculating Tm have been derived (see Sambrook et al., supra, 9.50-9.51). For hybridizations with shorter nucleic acids, i.e., oligonucleotides, the position of mismatches becomes more important, and the length of the oligonucleotide determines its specificity (see Sambrook et al., supra, 11.7-11.8). In one embodiment the length for a hybridizable nucleic acid is at least about 10 nucleotides. Preferable a minimum length for a hybridizable nucleic acid is at least about 15 nucleotides; more preferably at least about 20 nucleotides; and most preferably the length is at least 30 nucleotides. Furthermore, the skilled artisan will recognize that the temperature and wash solution salt concentration may be adjusted as necessary according to factors such as length of the probe.

[0086] A “substantial portion” of an amino acid or nucleotide sequence comprising enough of the amino acid sequence of a polypeptide or the nucleotide sequence of a gene to putatively identify that polypeptide or gene, either by manual evaluation of the sequence by one skilled in the art, or by computer-automated sequence comparison and identification using algorithms such as BLAST (Basic Local Alignment Search Tool; Altschul, S. F., et al., (1993) J. Mol. Biol. 215:403-410; see also www.ncbi.nlm.nih.gov/BLAST/). In general, a sequence of ten or more contiguous amino acids or thirty or more nucleotides is necessary in order to putatively identify a polypeptide or nucleic acid sequence as homologous to a known protein or gene. Moreover, with respect to nucleotide sequences, gene specific oligonucleotide probes comprising 20-30 contiguous nucleotides may be used in sequence-dependent methods of gene identification (e.g., Southern hybridization) and isolation (e.g., in situ hybridization of bacterial colonies or bacteriophage plaques). In addition, short oligonucleotides of 12-15 bases may be used as amplification primers in PCR in order to obtain a particular nucleic acid fragment comprising the primers. Accordingly, a “substantial portion” of a nucleotide sequence comprises enough of the sequence to specifically identify and/or isolate a nucleic acid fragment comprising the sequence. The instant specification teaches partial or complete amino acid and nucleotide sequences encoding one or more particular fungal proteins. The skilled artisan, having the benefit of the sequences as reported herein, may now use all or a substantial portion of the disclosed sequences for purposes known to those skilled in this art. Accordingly, the instant invention comprises the complete sequences as reported in the accompanying Sequence Listing, as well as substantial portions of those sequences as defined above.

[0087] The term “complementary” is used to describe the relationship between nucleotide bases that are capable to hybridizing to one another. For example, with respect to DNA, adenosine is complementary to thymine and cytosine is complementary to guanine. Accordingly, the instant invention also includes isolated nucleic acid fragments that are complementary to the complete sequences as reported in the accompanying Sequence Listing as well as those substantially similar nucleic acid sequences.

[0088] The term “percent identity”, as known in the art, is a relationship between two or more polypeptide sequences or two or more polynucleotide sequences, as determined by comparing the sequences. In the art, “identity” also means the degree of sequence relatedness between polypeptide or polynucleotide sequences, as the case may be, as determined by the match between strings of such sequences. “Identity” and “similarity” can be readily calculated by known methods, including but not limited to those described in: Computational Molecular Biology (Lesk, A. M., ed.) Oxford University Press, New York (1988); Biocomputing: Informatics and Genome Projects (Smith, D. W., ed.) Academic Press, New York (1993); Computer Analysis of Sequence Data, Part I (Griffin, A. M., and Griffin, H. G., eds.) Humana Press, New Jersey (1994); Sequence Analysis in Molecular Biology (von Heinje, G., ed.) Academic Press (1987); and Sequence Analysis Primer (Gribskov, M. and Devereux, J., eds.) Stockton Press, New York (1991). Preferred methods to determine identity are designed to give the largest match between the sequences tested. Methods to determine identity and similarity are codified in publicly available computer programs. Preferred computer program methods to determine identity and similarity between two sequences include, but are not limited to, the GCG Pileup program found in the GCG program package, as used in the instant invention, using the Needleman and Wunsch algorithm with their standard default values of gap creation penalty=12 and gap extension penalty=4 (Devereux et al., Nucleic Acids Res. 12:387-395 (1984)), BLASTP, BLASTN, and FASTA (Pearson et al., Proc. Natl. Acad. Sci. U.S.A. 85:2444-2448 (1988). The BLAST X program is publicly available from NCBI and other sources (BLAST Manual, Altschul et al., Natl. Cent. Biotechnol. Inf., Natl. Library Med. (NCBI NLM) NIH, Bethesda, Md. 20894; Altschul et al., J. Mol. Biol. 215:403-410 (1990)). Another preferred method to determine percent identity, is by the method of DNASTAR protein alignment protocol using the Jotun-Hein algorithm (Hein et al., Methods Enzymol. 183:626-645 (1990)). Default parameters for the Jotun-Hein method for alignments are: for multiple alignments, gap penalty=11, gap length penalty=3; for pairwise alignments ktuple=6. As an illustration, by a polynucleotide having a nucleotide sequence having at least, for example, 95% “identity” to a reference nucleotide sequence of SEQ ID NO:1 it is intended that the nucleotide sequence of the polynucleotide is identical to the reference sequence except that the polynucleotide sequence may include up to five point mutations per each 100 nucleotides of the reference nucleotide sequence of SEQ ID NO:1. In other words, to obtain a polynucleotide having a nucleotide sequence at least 95% identical to a reference nucleotide sequence, up to 5% of the nucleotides in the reference sequence may be deleted or substituted with another nucleotide, or a number of nucleotides up to 5% of the total nucleotides in the reference sequence may be inserted into the reference sequence. These mutations of the reference sequence may occur at the 5′ or 3′ terminal positions of the reference nucleotide sequence or anywhere between those terminal positions, interspersed either individually among nucleotides in the reference sequence or in one or more contiguous groups within the reference sequence. Analogously, by a polypeptide having an amino acid sequence having at least, for example, 95% identity to a reference amino acid sequence of SEQ ID NO:2 is intended that the amino acid sequence of the polypeptide is identical to the reference sequence except that the polypeptide sequence may include up to five amino acid alterations per each 100 amino acids of the reference amino acid of SEQ ID NO:2. In other words, to obtain a polypeptide having an amino acid sequence at least 95% identical to a reference amino acid sequence, up to 5% of the amino acid residues in the reference sequence may be deleted or substituted with another amino acid, or a number of amino acids up to 5% of the total amino acid residues in the reference sequence may be inserted into the reference sequence. These alterations of the reference sequence may occur at the amino or carboxy terminal positions of the reference amino acid sequence or anywhere between those terminal positions, interspersed either individually among residues in the reference sequence or in one or more contiguous groups within the reference sequence.

[0089] “Codon degeneracy” refers to divergence in the genetic code permitting variation of the nucleotide sequence without effecting the amino acid sequence of an encoded polypeptide. Accordingly, the instant invention relates to any nucleic acid fragment that encodes all or a substantial portion of the amino acid sequence encoding the bacterial adipic acid synthesizing proteins as set forth in SEQ ID NO:2, SEQ ID NO:4, SEQ ID NO:6, SEQ ID NO:8, SEQ ID NO:10, SEQ ID NO:12, SEQ ID NO:14, SEQ ID NO:18, SEQ ID NO:22, SEQ ID NO:24, and SEQ ID NO:26. The skilled artisan is well aware of the “codon-bias” exhibited by a specific host cell in usage of nucleotide codons to specify a given amino acid. Therefore, when synthesizing a gene for improved expression in a host cell, it is desirable to design the gene such that its frequency of codon usage approaches the frequency of preferred codon usage of the host cell.

[0090] “Synthetic genes” can be assembled from oligonucleotide building blocks that are chemically synthesized using procedures known to those skilled in the art. These building blocks are ligated and annealed to form gene segments which are then enzymatically assembled to construct the entire gene. “Chemically synthesized”, as related to a sequence of DNA, means that the component nucleotides were assembled in vitro. Manual chemical synthesis of DNA may be accomplished using well established procedures, or automated chemical synthesis can be performed using one of a number of commercially available machines. Accordingly, the genes can be tailored for optimal gene expression based on optimization of nucleotide sequence to reflect the codon bias of the host cell. The skilled artisan appreciates the likelihood of successful gene expression if codon usage is biased towards those codons favored by the host. Determination of preferred codons can be based on a survey of genes derived from the host cell where sequence information is available.

[0091] “Gene” refers to a nucleic acid fragment that expresses a specific protein, including regulatory sequences preceding (5′ non-coding sequences) and following (3′ non-coding sequences) the coding sequence. “Native gene” refers to a gene as found in nature with its own regulatory sequences. “Chimeric gene” refers any gene that is not a native gene, comprising regulatory and coding sequences that are not found together in nature. Accordingly, a chimeric gene may comprise regulatory sequences and coding sequences that are derived from different sources, or regulatory sequences and coding sequences derived from the same source, but arranged in a manner different than that found in nature. “Endogenous gene” refers to a native gene in its natural location in the genome of an organism. A “foreign” gene refers to a gene not normally found in the host organism, but that is introduced into the host organism by gene transfer. Foreign genes can comprise native genes inserted into a non-native organism, or chimeric genes. A “transgene” is a gene that has been introduced into the genome by a transformation procedure.

[0092] “Coding sequence” refers to a DNA sequence that codes for a specific amino acid sequence. “Suitable regulatory sequences” refer to nucleotide sequences located upstream (5′ non-coding sequences), within, or downstream (3′ non-coding sequences) of a coding sequence, and which influence the transcription, RNA processing or stability, or translation of the associated coding sequence. Regulatory sequences may include promoters, translation leader sequences, introns, and polyadenylation recognition sequences.

[0093] “Promoter” refers to a DNA sequence capable of controlling the expression of a coding sequence or functional RNA. In general, a coding sequence is located 3′ to a promoter sequence. Promoters may be derived in their entirety from a native gene, or be composed of different elements derived from different promoters found in nature, or even comprise synthetic DNA segments. It is understood by those skilled in the art that different promoters may direct the expression of a gene in different tissues or cell types, or at different stages of development, or in response to different environmental conditions. Promoters which cause a gene to be expressed in most cell types at most times are commonly referred to as “constitutive promoters”. It is further recognized that since in most cases the exact boundaries of regulatory sequences have not been completely defined, DNA fragments of different lengths may have identical promoter activity.

[0094] “RNA transcript” refers to the product resulting from RNA polymerase-catalyzed transcription of a DNA sequence. When the RNA transcript is a perfect complementary copy of the DNA sequence, it is referred to as the primary transcript or it may be a RNA sequence derived from posttranscriptional processing of the primary transcript and is referred to as the mature RNA. “Messenger RNA (mRNA)” refers to the RNA that is without introns and that can be translated into protein by the cell. “cDNA” refers to a double-stranded DNA that is complementary to and derived from mRNA. “Sense” RNA refers to RNA transcript that includes the mRNA and so can be translated into protein by the cell. “Antisense RNA” refers to a RNA transcript that is complementary to all or part of a target primary transcript or mRNA and that blocks the expression of a target gene (U.S. Pat. No. 5,107,065). The complementarity of an antisense RNA may be with any part of the specific gene transcript, i.e., at the 5′ non-coding sequence, 3′ non-coding sequence, introns, or the coding sequence. “Functional RNA” refers to antisense RNA, ribozyme RNA, or other RNA that is not translated yet has an effect on cellular processes.

[0095] The term “operably linked” refers to the association of nucleic acid sequences on a single nucleic acid fragment so that the function of one is affected by the other. For example, a promoter is operably linked with a coding sequence when it is capable of affecting the expression of that coding sequence (i.e., that the coding sequence is under the transcriptional control of the promoter). Coding sequences can be operably linked to regulatory sequences in sense or antisense orientation.

[0096] The term “expression”, as used herein, refers to the transcription and stable accumulation of sense (mRNA) or antisense RNA derived from the nucleic acid fragment of the invention. Expression may also refer to translation of mRNA into a polypeptide.

[0097] “Mature” protein refers to a post-translationally processed polypeptide; i.e., one from which any pre- or propeptides present in the primary translation product have been removed. “Precursor” protein refers to the primary product of translation of mRNA; i.e., with pre- and propeptides still present. Pre- and propeptides may be but are not limited to intracellular localization signals.

[0098] “Transformation” refers to the transfer of a nucleic acid fragment into the genome of a host organism, resulting in genetically stable inheritance. Host organisms containing the transformed nucleic acid fragments are referred to as “transgenic” or “recombinant” or “transformed” organisms.

[0099] The terms “plasmid”, “vector” and “cassette” refer to an extra chromosomal element often carrying genes which are not part of the central metabolism of the cell, and usually in the form of circular double-stranded DNA molecules. Such elements may be autonomously replicating sequences, genome integrating sequences, phage or nucleotide sequences, linear or circular, of a single- or double-stranded DNA or RNA, derived from any source, in which a number of nucleotide sequences have been joined or recombined into a unique construction which is capable of introducing a promoter fragment and DNA sequence for a selected gene product along with appropriate 3′ untranslated sequence into a cell. “Transformation cassette” refers to a specific vector containing a foreign gene and having elements in addition to the foreign gene that facilitate transformation of a particular host cell. “Expression cassette” refers to a specific vector containing a foreign gene and having elements in addition to the foreign gene that allow for enhanced expression of that gene in a foreign host.

[0100] Standard recombinant DNA and molecular cloning techniques used here are well known in the art and are described by Sambrook, J., Fritsch, E. F. and Maniatis, T., Molecular Cloning: A Laboratory Manual, Second Edition, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y. (1989) (hereinafter “Maniatis”); and by Silhavy, T. J., Bennan, M. L. and Enquist, L. W., Experiments with Gene Fusions, Cold Spring Harbor Laboratory Cold Press Spring Harbor, N.Y. (1984); and by Ausubel, F. M. et al., Current Protocols in Molecular Biology, published by Greene Publishing Assoc. and Wiley-Interscience (1987).

[0101] The nucleic acid fragments of the instant invention may be used to isolate cDNAs and genes encoding homologous enzymes from the same or other bacterial species. Isolation of homologous genes using sequence-dependent protocols is well known in the art. Examples of sequence-dependent protocols include, but are not limited to, methods of nucleic acid hybridization, and methods of DNA and RNA amplification as exemplified by various uses of nucleic acid amplification technologies (e.g., polymerase chain reaction, ligase chain reaction).

[0102] For example, genes encoding similar enzymes to those of the instant adipic acid pathway, either as cDNAs or genomic DNAs, could be isolated directly by using all or a portion of the instant nucleic acid fragments as DNA hybridization probes to screen libraries from any desired bacteria using methodology well known to those skilled in the art. Specific oligonucleotide probes based upon the instant nucleic acid sequences can be designed and synthesized by methods known in the art (Maniatis). Moreover, the entire sequences can be used directly to synthesize DNA probes by methods known to the skilled artisan such as random primers DNA labeling, nick translation, or end-labeling techniques, or RNA probes using available in vitro transcription systems. In addition, specific primers can be designed and used to amplify a part of or full-length of the instant sequences. The resulting amplification products can be labeled directly during amplification reactions or labeled after amplification reactions, and used as probes to isolate full length cDNA or genomic fragments under conditions of appropriate stringency.

[0103] In addition, two short segments of the instant ORF's may be used in polymerase chain reaction protocols to amplify longer nucleic acid fragments encoding homologous genes from DNA or RNA. The polymerase chain reaction may also be performed on a library of cloned nucleic acid fragments wherein the sequence of one primer is derived from the instant nucleic acid fragments, and the sequence of the other primer takes advantage of the presence of the polyadenylic acid tracts to the 3′ end of the mRNA precursor encoding bacterial genes. Alternatively, the second primer sequence may be based upon sequences derived from the cloning vector. For example, the skilled artisan can follow the RACE protocol (Frohman et al., PNAS USA 85:8998 (1988)) to generate cDNAs by using PCR to amplify copies of the region between a single point in the transcript and the 3′ or 5′ end. Primers oriented in the 3′ and 5′ directions can be designed from the instant sequences. Using commercially available 3′ RACE or 5′ RACE systems (BRL), specific 3′ or 5′ cDNA fragments can be isolated (Ohara et al., PNAS USA 86:5673 (1989); Loh et al., Science 243:217 (1989)).

[0104] Availability of the instant nucleotide and deduced amino acid sequences facilitates immunological screening cDNA expression libraries. Synthetic peptides representing portions of the instant amino acid sequences may be synthesized. These peptides can be used to immunize animals to produce polyclonal or monoclonal antibodies with specificity for peptides or proteins comprising the amino acid sequences. These antibodies can be then be used to screen cDNA expression libraries to isolate full-length cDNA clones of interest (Lemer, R. A. Adv. Immunol. 36:1 (1984); Maniatis).

[0105] The enzymes and gene products of the instant ORF's may be produced in heterologous host cells, particularly in the cells of microbial hosts, and can be used to prepare antibodies to the resulting proteins by methods well known to those skilled in the art. The antibodies are useful for detecting the proteins in situ in cells or in vitro in cell extracts. Preferred heterologous host cells for production of the instant enzymes are microbial hosts. Microbial expression systems and expression vectors containing regulatory sequences that direct high level expression of foreign proteins are well known to those skilled in the art. Any of these could be used to construct chimeric genes for production of the any of the gene products of the instant ORF's. These chimeric genes could then be introduced into appropriate microorganisms via transformation to provide high level expression of the enzymes.

[0106] Additionally, chimeric genes will be effective in altering the properties of the host bacteria. It is expected, for example, that introduction of chimeric genes encoding one or more of the ORF's 1.2, 1.3, 1.4, 1.6, 1.7, 2.2 and 2.4 under the control of the appropriate promoters, into a host cell comprising at least one copy of these genes will demonstrate the ability to produce various intermediates in the adipic acid biosynthetic pathway. For example, the appropriately regulated ORF 1.2, would be expected to express an enzyme capable of converting ε-caprolactone to 6-hydroxy hexanoic acid (FIG. 1). Similarly, ORF 2.2 or ORF 1.4 would be expected to express an enzyme capable of converting 6-hydroxy hexanoic acid to 6-aldehyde hexanoic acid (FIG. 1). Additionally ORF 1.6 or ORF 1.7 would, be expected to express an enzyme capable of converting cyclohexanol to cyclohexanone (FIG. 1). Finally, expression of both GC-1 (SEQ ID NO:15) or GC-2 (SEQ ID NO:16) in a single recombinant organism will be expected to effect the conversion of cyclohexanol to adipic acid in a transformed host (FIG. 2).

[0107] ORF 1.3 or ORF 2.4 encode the Brevibacterium sp HCU monooxygenase. Applicant has demonstrated that this monooxygenase, although useful for the conversion of cyclohexanone to ε-caprolactone, has substrate specificity for a variety of other single ring compounds, including, but not limited to cyclobutanone, cyclopentanone, 2-methylcyclopentanone, 2-methylcyclohexanone, cyclohex-2-ene-1-one, 2-(cyclohex-1-enyl)cyclohexanone, 1,2-cyclohexanedione, 1,3-cyclohexanedione, and 1,4-cyclohexanedione (see Table 2). It is contemplated that the instant monooxygenases would be useful in the bioconversion of any molecule containing a complete oxidized or derivatized cyclohexanone substructure, such as for example progesterone or 2-amino hydroxycaproate.

[0108] It is further contemplated that the open reading frames showing high homology to bacterial regulatory elements may in fact be useful in constructing various expression vectors. For example, ORF's 1.1 and 2.3 each appear to encode a transcriptional regulator. It is contemplated that these ORF's may be used in regulatable expression vectors for for HiGC Gram positive bacteria (a group including, but not lilmited to, the genera Brevibacterium, Corynebacterium, Mycobacterium, Rhodococcus, Arthrobacter, Nocardia, Streptomyces, Actinomyces). For example, such vectors may include the gene encoding the transcription regulator (whether repressor or activator) as well as promoter derived from the upstream sequence of GC-1 or GC-2. Induction of transcription of genes cloned downstream of the promoter sequence would be induced by the addition in the growth medium of the molecule that induces either cluster. Likely inducers of GC-1 or GC-2 expression would be cyclohexanol or cyclohexanone or products of their oxidation.

[0109] Vectors or cassettes useful for the transformation of suitable host cells are well known in the art. Typically the vector or cassette contains sequences directing transcription and translation of the relevant gene, a selectable marker, and sequences allowing autonomous replication or chromosomal integration. Suitable vectors comprise a region 5′ of the gene which harbors transcriptional initiation controls and a region 3′ of the DNA fragment which controls transcriptional termination. It is most preferred when both control regions are derived from genes homologous to the transformed host cell, although it is to be understood that such control regions need not be derived from the genes native to the specific species chosen as a production host.

[0110] Initiation control regions or promoters, which are useful to drive expression of the instant ORF's in the desired host cell are numerous and familiar to those skilled in the art. Virtually any promoter capable of driving these genes is suitable for the present invention including but not limited to CYC1, HIS3, GAL1, GAL10, ADH1, PGK, PHO5, GAPDH, ADC1, TRP1, URA3, LEU2, ENO, TPI (useful for expression in Saccharomyces); AOX1 (useful for expression in Pichia); and lac, trp, IP_(L), IP_(R), T7, tac, and trc (useful for expression in Escherichia coli).

[0111] Termination control regions may also be derived from various genes native to the preferred hosts. Optionally, a termination site may be unnecessary, however, it is most preferred if included.

DESCRIPTION OF THE PREFERRED EMBODIMENTS

[0112] The present invention relates to the isolation of genes encoding enzymes useful for the conversion of cyclohexanol to adipic acid, and for the production of enzymatic intermediates in the adipic acid biosynthetic pathway. The relevant genes were isolated from a Brevibacterium sp. which was cultured from an industrial waste stream. Colonies that had the ability to grow on halophilic minimal medium in the presence of cyclohexanone were selected for further study. Taxonomic identification of the Brevibacterium sp HCU was accomplished on the basis of 16s rDNA analysis. Using RT-PCR, two gene clusters (GC-1 and GC-2) were identified and cloned. All open reading frames (ORF's) residing on both gene clusters were sequenced. The organization of the ORF's as well as the putative identification of gene function is shown in FIG. 2. The ORF's encoding two cyclohexanone monooxygenases were cloned into expression hosts and expression of the genes was confirmed on the basis of gel electrophoresis. GC-MS analysis confirmed the activity of the expressed Cyclohexanone monoooxygenase proteins in vitro as well as expressed in the E. coli host.

[0113] In similar fashion, ORF's 2.2 and 1.4 were isolated and cloned into an E. coli expression host for expressions studies. GC-MS analysis confirmed that 6-hydroxy hexanoic promotes the reduction of NAD into NADH, suggesting that both transformants obtained the ability to convert 6-hydroxy hexanoic acid to the corresponding aldehyde. This data provided evidence that ORF's 2.2 and 1.4 encode a 6-hydroxy hexanoic acid dehydrogenase activity.

[0114] The method for the identification of GC-1 and GC-2 as well as the relevant open reading frames is a modified RT-PCT protocol, and is based on the concept of mRNA differential display (McClelland et al., U.S. Pat. No. 5,487,985; Liang, et al., Nucleic Acids Res. (1994), 22(25), 5763-4; Liang et al., Nucleic Acids Res. (1993), 21(14), 3269-75; Welsh et al., Nucleic Acids Res. (1992), 20 (19), 4965-70). The method was particularly adaptable to the instant isolation of the monooxygenase genes as it relies on the inducibility of the gene or pathway message.

[0115] The instant method is a technique that compares the mRNAs sampled by arbitrary RT-PCR amplification between control and induced cells. For the analysis of bacterial genomes, typically only a small set of primers is used to generate many bands which are then analyzed by long high resolution sequencing gels. Applicant has modified this approach using a larger set of about 81 primers analyzed on relatively short polyacrylamide urea gels (15 cm long and 1.5 mm thick). Due to their thickness and small length these gels do not have the resolution of sequencing gels and faint bands are difficult to detect. Each primer generates a RAPD pattern of an average of ten DNA fragments. Theoretically, a set of 81 primers should generate about 800 independent bands.

[0116] The basic protocol involves 6 steps which follow growth of the cells and total RNA extraction. The steps are: (i) arbitrarily primed reverse transcription and PCR amplification, (ii) separation and visualization of PCR products, (iii) elution, reamplification and cloning of differentially expressed DNA fragments, (iv) sequencing of clones (v) assembly of clones in contigs and sequence analysis; and (vi) identification of induced metabolic pathways.

[0117] Arbitrarily primed reverse transcription and PCR amplification were performed with the commercial enzyme kit from Gibco-BRL “Superscript One-Step RT-PCR System” which provides buffers, the reverse transcriptase and the Taq polymerase in a single tube. The reaction mix contains 0.4 mM of each dNTP and 2.4 mM MgSO₄ in addition to other components.

[0118] The primers used were a collection of 81 primers with the sequence 5′-CGGAGCAGATCGAVVVV(SEQ ID NO:38) where VVVV represent all the combinations of the three bases A, G and C at the last four positions of the 3′-end. The 5′ end sequence was designed as to have minimal homology towards both orientations of the 16S rDNA sequences from many organisms with widespread phylogenetic position in order to minimize non specific amplification of these abundant and stable RNA species.

[0119] The 81 primers were pre-aliquoted on five 96 well PCR plates. In each plate, each primer was placed in two adjacent positions as indicated below. A1 A1 A2 A2 A3 A3 A4 A4 A5 A5 A6 A6 A7 A7 A8 A8 A9 A9 A10 A10 A11 A11 A12 A12 A13 A13 A14 A14 A15 A15 A16 A16 A17 A17 A18 A18 A19 A19 A20 A20 A21 A21 A22 A22 A23 A23 A24 A24 A25 A25 A26 A26 A27 A27 A28 A28 A29 A29 A30 A30 A31 A31 A32 A32 A33 A33 A34 A34 A35 A35 A36 A36 A37 A37 A38 A38 A39 A39 A40 A40 A41 A41 A42 A42 A43 A43 A44 A44 A45 A45 A46 A46 A47 A47 A48 A48

[0120] Typical RT-PCT was then performed using standard protocols well known in the art.

[0121] Separation and visualization of PCR products was carried out as follows: 5 μl out each 25 μl RT-PCR reaction were analyzed on precuts acrylamide gels (Excell gels Pharmacia Biotech). PCR products from control and Induced RNA generated from the same primers were analyzed side by side. The gels were stained with the Plus One DNA silver staining Kit (Pharmacia Biotech) to visualized the PCR Fragments then rinsed extensively with distilled water for one hour to remove the acetic acid used in the last step of the staining procedure. DNA fragments from control and induced lanes generated from the same primers were compared. Bands present in the induced lane but not in the control lane were excised with a scalpel.

[0122] Elution, reamplification and cloning of differentially expressed DNA fragments was carried out as follows. Each band excised from the gel was placed in a tube containing 50 μl of 10 mM KCl and 10 mM Tris-HCl pH 8.3 and heated to 95° C. for 1 hr to allow some of DNA to diffuse out of the gel. Serial dilutions of the eluate ({fraction (1/10)}) were used as template for a new PCR reaction using the following reactions: Mg Acetate (4 mM), dNTPs (0.2 mM), Taq polymerase buffer (Perkin Elmer), oligonucleotide primer (0.2 μM). The primer used for each reamplification was the one that had generated the DNA pattern.

[0123] Each reamplified fragment was cloned into the blue/white cloning vector pCR2.1-Topo (Invitrogen).

[0124] Four to eight clones from the cloning of each differentially expressed band were submitted to sequencing using the universal forward. Inserts that did not yield a complete sequence where sequenced on the other strand with the reverse universal primer.

[0125] The nucleotide sequences obtained where trimmed for vector, primer and low quality sequences, and aligned using the Sequencher program (Gene Code Corporation). The sequences of the assembled contigs were then compared to protein and nucleic acid sequence databases using the BLAST alignment program (BLAST Manual, Altschul et al., Natl. Cent. Biotechnol. Inf., Natl. Library Med. (NCBI NLM) NIH, Bethesda, Md. 20894; Altschul et al., J. Mol. Biol. 215:403-410 (1990)).

[0126] Once all contigs were assembled, the number of bands having yielded clones included in the contig was plotted. Many contigs were composed of the sequence of distinct identical clones from the cloning of a single band. Such contigs may represent false positives, i.e., PCR bands not really differentially expressed. In other cases the PCR bands may represent genes actually induced but having been sampled by only one primer in the experiment. Some contigs were generated from the alignment of DNA sequences from bands amplified by distinct primers.

[0127] The present invention is further defined in the following Examples. It should be understood that these Examples, while indicating preferred embodiments of the invention, are given by way of illustration only. From the above discussion and these Examples, one skilled in the art can ascertain the essential characteristics of this invention, and without departing from the spirit and scope thereof, can make various changes and modifications of the invention to adapt it to various usages and conditions.

EXAMPLES

[0128] General Methods

[0129] Procedures for phosphorylations, ligations and transformations are well known in the art. Techniques suitable for use in the following examples may be found in Sambrook, J., Fritsch, E. F. and Maniatis, T., Molecular Cloning: A Laboratory Manual, Second Edition, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y. (1989) (hereinafter “Maniatis”).

[0130] Materials and methods suitable for the maintenance and growth of bacterial cultures are well known in the art. Techniques suitable for use in the following examples may be found as set out in Manual of Methods for General Bacteriology (Phillipp Gerhardt, R. G. E. Murray, Ralph N. Costilow, Eugene W. Nester, Willis A. Wood, Noel R. Krieg and G. Briggs Phillips, eds), American Society for Microbiology, Washington, DC. (1994)) or by Thomas D. Brock in Biotechnology: A Textbook of Industrial Microbiology, Second Edition, Sinauer Associates, Inc., Sunderland, Mass. (1989). All reagents, restriction enzymes and materials used for the growth and maintenance of bacterial cells were obtained from Aldrich Chemicals (Milwaukee, Wis.), DIFCO Laboratories (Detroit, Mich.), GIBCO/BRL (Gaithersburg, Md.), or Sigma Chemical Company (St. Louis, Mo.) unless otherwise specified.

[0131] The meaning of abbreviations is as follows: “h” means hour(s), “min” means minute(s), “sec” means second(s), “d” means day(s), “mL” means milliliters, “L” means liters.

[0132] Bacterial Strains and Plasmids:

[0133] Brevibacterium sp HCU was isolated from enrichment of activated sludge obtained from an industrial wastewater treatment facility. Max Efficiency competent cells of E. coli DH5α and DH10B were purchased from GIBCO/BRL (Gaithersburg, Md.). Expression plasmid pQE30 were purchased from Qiagen (Valencia, Calif.). Cloning vector pCR2.1 and expression vector pTrc/His2-Topo were purchased from Invitrogen (San Diego, Calif.).

[0134] Growth Conditions:

[0135] Bacterial cells were usually grown in Luria-Bertani medium containing 1% of bacto-tryptone, 0.5% of bacto-yeast extract and 1% of NaCl unless otherwise indicated below.

[0136] Growth substrates for Brevibacterium sp. HCU were added to S12 medium as sole source of carbon to the concentration of 100 ppm. Yeast Extract +++ Casaminoacids +++ Glucose + Fructose ++ Maltose — Sucrose — Methanol — Ethanol ++ 1-Propanol ++ 2-Propanol — 1-Butanol ++ Glycerol ++ Acetate +++ Propionate +++ Butyrate +++ Lactate +++ Succinate ++ Decanoate + Decane — Hexadecane — Phenol — Benzene — Benzoate — Toluene — Cyclohexane — Cyclohexanone ++ Cyclohexanol + Cyclopentanone + Cycloheptanone — Cycloheptanol — Cyclooctanone — Cyclododecanone —

[0137] Enzymatic Assays

[0138] The cyclohexanone monooxygenase activity of each overexpressed enzyme was assayed spectrophotometrically at 340 nm by monitoring the oxidation of NADPH. In a spectrophotometer cuvette containing 50 mM Tris-HCl, 50 mM K Acetate pH 7 at 30° C. NADPH 0.3 mM and 20-50 μg of homogenous monooxygenase the reaction was initiated by the addition of 1 mM of cyclohexanone. Substrate specificity of each enzyme was tested with other cyclic ketones added at 0.1 or 0.5 mM.

[0139] Confirmation of the oxidation of cyclohexanone into caprolactone was determined by GC-Mass Spectrometry on a HP 5890 Gas Chromatograph with HP 5971 mass selective detector equipped with a HP-1 capillary column (Hewlett Packard). Prior to analysis, samples were acidified to pH 3 by HCl, extracted by dichloromethane three times, dried with MgSO4 and filtered.

Example 1 Isolation of a Cyclohexanone Degrading Brevibacterium sp. HCU

[0140] Selection for a halotolerant bacterium degrading cyclohexanol and cyclohexanone was performed on agar plates of a halophilic minimal medium (Per 1: Agar 15 g, NaCl 100 g, MgSO4 10 g, KCl 2 g, NH4Cl 1 g, KH2PO4 50 mg, FeSO4 2 mg, Tris HCl 8 g, pH 7) containing traces of yeast extract and casaminoacids (0.005% each) and incubated under vapors of cyclohexanone at 30° C. The inoculum was a resuspension of sludge from industrial wastewater treatment plant. After two weeks, beige colonies were observed and streaked to purity on the same plates under the same conditions.

[0141] Taxonomic identification was performed by PCR amplification of 16S rDNA using primers corresponding to conserved regions of the 16S rDNA molecule (Amann).

[0142] These primers were: 5′-GAGTTTGATCCTGGCTCAG-3′ SEQ ID NO:28 5′-CAGG(A/C)GCCGCGGTAAT(A/T)C-3′ SEQ ID NO:29 5′-GCTGCCTCCCGTAGGAGT-3′ SEQ ID NO:30 5′-CTACCAGGGTAACTAATCC-3′ SEQ ID NO:31 5′-ACGGGCGGTGTGTAC-3′ SEQ ID NO:32 5′-CACGAGCTGACGACAGCCAT-3′ SEQ ID NO:33 5′-TACCTTGTTACGACTT-3′ SEQ ID NO:34 5′-G(A/T)ATTACCGCGGC(G/T)GCTG-3′ SEQ ID NO:35 5′-GGATTAGATACCCTGGTAG-3′ SEQ ID NO:36 5′-ATGGCTGTCGTCAGCTCGTG-3′ SEQ ID NO:37

[0143] The complete 16s DNA sequence of the isolated Brevibacterium sp. HCU was found to be unique and is shown as SEQ ID NO:49.

[0144] Induction of the Cyclohexanone Degradation Pathway

[0145] Inducibility of the cyclohexanone pathway was tested by respirometry in low salt medium. One colony of strain HCU was inoculated in 300 ml of S12 mineral medium (50 mM KHPO₄ buffer (pH 7.0), 10 mM (NH4)₂SO₄, 2 mM MgCl₂, 0.7 mM CaCl₂, 50 uM MnCl₂, 1 μM FeCl₃, 1 μM ZnCl₃, 1.72 μM CuSO₄, 2.53 μM CoCl₂, 2.42 μM Na₂MoO₂, and 0.0001% FeSO₄) containing 0.005% yeast extract. The culture was then split in two flasks which received respectively 10 mM Acetate and 10 mM cyclohexanone. Each flask was incubated for six hrs at 30° C. to allow for the induction of the cyclohexanone degradation genes. The cultures were then chilled on iced, harvested by centrifugation and washed three times with ice cold S12 medium lacking traces of yeast extract. Cells were finally resuspended to an absorption of 2.0 at 600 nm and kept on ice until assayed.

[0146] Half a ml of each culture was placed in a water jacketed respirometry cell equipped with an oxygen electrode (Yellow Spring Instruments Co., Yellow spring, Ohio) and containing 5 ml of air saturated S12 medium at 30° C. After establishing the baseline respiration for each of the cell suspensions, acetate or cyclohexanone were added to a final concentration of 0.02% and the rate Of O₂ consumption was further monitored.

Example 2 Identification of Genes Involved in the Oxidation of Cyclohexanone

[0147] Identification of genes involved in the oxidation of cyclohexanone made use of the fact that this oxidation pathway is inducible. The mRNA populations of a control culture and a cyclohexanone-induced culture were compared using a technique based on the random amplification of DNA fragments by reverse transcription followed by PCR.

[0148] Isolation of Total Cellular RNA

[0149] The cyclohexanone oxidation pathway was induced by addition of 0.1% cyclohexanone in one of two “split” cultures of Brevibacterium HCU grown as described in the GENERAL METHODS. Each 10 ml culture was chilled rapidly in an ice/water bath and transferred to a 15 ml tube. Cells were collected by centrifugation for 2 min. at 12,000= g in a rotor chilled to −4° C. The supernatants were discarded, the pellets resuspended in 0.7 ml of ice cold solution of 1% SDS and 100 mM Na acetate at pH 5 and transferred to a 2 ml tube containing 0.7 ml of aqueous phenol pH 5 and 0.3 ml of 0.5 mm zirconia beads (Biospec Products, Bartlesville, Okla.). The tubes were placed in a bead beater (Biospec Products, Bartlesville, Okla.) and disrupted at 2400 beats per min. for two min.

[0150] Following the disruption of the cells, the liquid phases of the tubes were transferred to new microfuge tubes and the phases separated by centrifugation for 3 min. at 15,000× g. The aqueous phase containing total RNA was extracted twice more with phenol at pH 5 and twice with a mixture of phenol/chloroform/isoamyl alcohol pH 7.5 until a precipitate was no longer visible at the phenol/water interface. Nucleic acids were then recovered from the aqueous phase by ethanol precipitation with three volumes of ethanol and the pellet resuspended in 0.5 ml of diethyl pyrocarbonate (DEPC) treated water. DNA was digested by 6 units of RNAse-free DNAse (Boehringer Mannheim, Indianapolis, Ind.) for 1 hr at 37° C. The total RNA solution was then extracted twice with phenol/chloroform/isoamyl alcohol pH 7.5, recovered by ethanol precipitation and resuspended in 1 ml of DEPC treated water to an approximate concentration of 0.5 mg per ml.

[0151] RT-PCR Oligonucleotide Set

[0152] A set of 81 primers was designed with the sequence CGGAGCAGATCGAVVVV (SEQ ID NO:38) where VVVV represent all the combinations of the three bases A, G and C at the last four positions of the 3′-end.

[0153] Generation of RAPDs Patterns from Arbitrarily Reverse-transcribed Total RNA

[0154] Arbitrarily amplified DNA fragments were generated from the total RNA of control and induced cells by following the protocol described by Wong K. K. et al., (Proc Natl Acad Sci USA. 91:639 (1994)). A series of parallel reverse transcription/PCR amplification experiments each using one oligonucleotide per reaction were performed on the total RNA from the control and induced cells. Briefly, 50 μl reverse transcription reactions were performed on 20-100 ng of total RNA using the 100 u Moloney Murine Leukemia Virus (MMLV) reverse transcriptase (Promega, Madison, Wis.) with 0.5 mM of each dNTP and 1 mM for each oligonucleotide primer. Reactions were prepared on ice and incubated at 37° C. for 1 hr.

[0155] Five μl from each RT reaction were then used as template in a 50 μl PCR reaction containing the same primer used for the RT reaction (0.25 μM), dNTPs (0.2 mM each), Mg Acetate (4 mM) and 2.5 u of the Taq DNA polymerase Stoffel fragment (Perkin Elmer, Foster City, Calif.). The following temperature program was used: 94° C. (5 min.), 40° C. (5 min.), 72° C. (5 min.) for 1 cycle followed by 40 cycles of: 94° C. (1 min.), 60° C. (1 min.), 72° C. (5 min.).

[0156] RAPD fragments were separated by electrophoresis on acrylamide gels (15 cm×15 cm×1.5 mm, 6% acrylamide, 29/1 acryl/bisacrylamide, 100 mM Tris, 90 mM borate, 1 mM EDTA pH 8.3). Five μl from each PCR reaction were analyzed, running side by side the reactions from the control and the induced RNA for each primer. Electrophoresis was performed at 1 V/cm. DNA fragment were visualized by silver staining using the Plus One® DNA silver staining kit in the Hoefer automated gel stainer (Amersham Pharmacia Biotech, Piscataway, N.J.)

[0157] Reamplification of the Differentially Expressed DNA

[0158] Stained gels were rinsed extensively for one hr with distilled water. Bands generated from the RNA of cyclohexanone induced cells but absent in the reaction from the RNA of control cells were excised from the gel and placed in a tube containing 50 μl of 10 mM KCl and 10 mM Tris-HCl pH 8.3 and heated to 95° C. for 1 hr to allow some of the DNA to diffuse out of the gel. Serial dilutions of the eluate over a 200 fold range were used as template for a new PCR reaction using the taq polymerase. The primer used for each reamplification (0.25 μM) was the one that had generated the pattern.

[0159] Each reamplified fragment was cloned into the blue/white cloning vector pCR2.1 (Invitrogen, San Diego, Calif.) and sequenced using the universal forward and reverse primers.

Example 3 Cloning Sequencing and Identification Of ORF's On GC-1 And GC-2

[0160] Kilobase-long DNA fragments extending the sequences fragments identified by differential display were generated by “Out-PCR”, a PCR technique using an arbitrary primer in addition to a sequence specific primer.

[0161] Genomic DNA was used as template in 10 separate 50 μl PCR reactions using the long range rTth XL DNA polymerase (Perkin-Elmer, Foster City, Calif.) and one of 10 arbitrary primers described above. The reaction included the rTth XL buffer provided by the manufacturer, 1.2 mM Mg Acetate, 0.2 mM of each dNTP, genomic DNA (10-100 ng) and 1 unit of rTth XL repolymerase. Annealing was performed at 45° C. to allow arbitrary priming of the genomic DNA and the DNA replication was extended for 15 min. at 72° C. At that point each reaction was split in two. One of the two tubes was kept unchanged and used as a control while the other tube received a specific primer corresponding to the end sequence of a differentially expressed fragment to be extended and directed towards the outside of the fragment. For example to extend the sequence of the first monooxygenase, two primers were designed one diverging from the 5′ end of the differentially displayed fragment #1 (5′-GATCCACCAAGTTCCTCC-3′, [SEQ ID NO:39]) and one diverging from 3′ end of the differentially displayed fragment #3 (5′-CCCGGTAAATCACGTGAGTACCACG-3′, [SEQ ID NO:40]). Thirty additional PCR cycles were performed and the two reactions were analyzed side by side by agarose electrophoresis. For about one fifth of the arbitrary primers used, one or several additional bands were present in the sample having received the specific primer. These bands were excised from the gel, melted in 0.5 ml H₂O and used as template in a set of new PCR reactions that included rTth XL buffer, 1.2 mM Mg Acetate, 0.2 mM of each dNTP, 0.4 μM of primers, {fraction (1/1000)} dilution of the melted slice 1 μl and 1 unit of rTth XL polymerase.

[0162] For each reamplification, two control reactions were performed in order to test that the reamplification of the band of interest. Each reaction omitted either the arbitrary or the specific primer.

[0163] The Reaction Components

[0164] The DNA fragments that fulfilled that condition were sequenced using the specific primer. The subset of DNA fragment with sequence overlap with the differentially expressed fragment to be extended were further sequenced either by “primer walking” or “shotgun cloning” of a partial MobI digest in pCR2.1 (Invitrogen, San Diego, Calif.).

[0165] To rule out the creation of PCR artifacts, overlapping DNA fragments 2-3 kb long were reamplified from chromosomal DNA using primers derived from the assembled sequence.

[0166] ORF's contained on GC-1 and GC-2 were identified by conducting BLAST (Basic Local Alignment Search Tool; Altschul, S. F., et al., (1993) J. Mol. Biol. 215:403-410; see also www.ncbi.nlm.nih.gov/BLAST/) searches for similarity to sequences contained in the BLAST “nr” database (comprising all non-redundant GenBank CDS translations, sequences derived from the 3-dimensional structure Brookhaven Protein Data Bank, SWISS-PROT protein sequence database, EMBL, and DDBJ databases). The sequences obtained were analyzed for similarity to all publicly available DNA sequences contained in the “nr” database using the BLASTN algorithm provided by the National Center for Biotechnology Information (NCBI). The DNA sequences were translated in all reading frames and compared for similarity to all publicly available protein sequences contained in the “nr” database using the BLASTX algorithm (Gish, W. and States, D. J. (1993) Nature Genetics 3:266-272) provided by the NCBI.

[0167] The sequence comparisons based on BLASTX analysis against the “nr” database are given below in Table 1 using Xnr BLAST algorithm. TABLE 1 SEQ ID SEQ ID % % ORF Similarity Identified base Peptide Identity^(a) Similarity^(b) E-value^(c) Citation 1.1 gi|143969 rteB [Bacteroides 1 2 35% 54% 9e-12 J. Bacteriol. 174, 2935-2942 (1992) thetaiotaomicron] 1.2 emb|CAB42768.1| putative esterase 3 4 37% 54% 8e-30 Mol. Microbiol. 21 (1), 77-96 (1996) [Streptomyces coelicolor] 1.3 dbj|BAA24454.1| steroid 5 6 44% 59% 1e-123 J. Biochem. 126 (3), 624-631 (1999) monooxygenase [Rhodococcus rhodochrous] 1.4 sp|P31005| 7 8 25% 44% 3e-34 J. Bacteriol. 174 (16), 5346-5353 (1992) Methanol dehydrogenase. [Bacillus sp.] 1.5 gi|2649379 9 10 27% 44% 1e-25 Nature 390 (6658), 364-370 (1997) 3-hydroxyacyl-CoA dehydrogenase [Archaeoglobus fulgidus] 1.6 >gb|AAD35385.1| 11 12 33% 51% 9e-30 Nature 399, 323-329 (1999) oxidoreductase, short chain dehydrogenase/reductase family [Thermotoga maritima] 1.7 >gb|AAD36790.1| 13 14 38% 57% 6e-40 Nature 399, 323-329 (1999) 3-oxoacyl-(acyl carrier protein) reductase [Thermotoga maritima] 2.1 No homology identified 2.2 sp|P50381| 17 18 30% 47% 1e-37 J. Bacteriol. 178 (1), 301-305 (1996) alcohol dehydrogenase [Sulfolobus sp.] 2.3 >emb|CAB53399.1| 19 20 32% 46% 3e-21 Mol. Microbiol. 21 (1), 77-96 (1996) putative transcriptional regulator [Streptomyces coelicolor A3(2)] 2.4 |PID|d1025370 21 22 38% 53% 2e-95 J. Biochem. 126 (3), 624-631 (1999) Steroid monooxygenase [Rhodococcus rhodochrous] 2.5 >pir||A29606 23 24 51% 64% 9e-18 Gene 58:229-41 (1987) Member of the ArsR family of transcriptional regulators [Streptomyces coelicolor] 2.6 >gb|AAF11740.1|NADH-dependen 25 26 50% 61% 2e-76 Science 286, 1571-1577 (1999) oxidoreductase, putative [Deinococcus radiodurans] 2.7 No Homology identified 27

Example 4 Expression of Monooxygenases in E. coli

[0168] The monooxygenase genes were cloned in the multiple cloning site of the N-terminal His6 expression vector pQE30 (Qiagen). Each gene was amplified by PCR from chromosomal DNA using primers corresponding to the ends of the gene and engineered to introduce a restriction site (underlined) not present in the gene. The oligonucleotides 5′-GAAAGATCGAGGATCCATGCCAATTACACAAC-3′ (SEQ ID NO:41) and 5′-TCGAGCAAGCTTGGCTGCAA-3′ (SEQ ID NO:42) were used for the cluster 1 monooxygenase gene and 5′-TCGAAGGAGGAGGCATGCATGACGTCAACC-3′ (SEQ ID NO:43) and 5′-CAGCAGGGACAAGCTTAGACTCGACA-3′ (SEQ ID NO:44) for the cluster 2 monooxygenase gene.

[0169] The resulting plasmids (pPCB1 and pPCB2) were introduced into E. coli strain DH10B containing a pACYC 184 (tet^(R)) derivative with the lacIQ gene cloned in the EcoRI site of the chloramphenicol acetyl transferase gene to provide a tighter repression of the gene to be expressed.

[0170] Expression of the His6-tagged proteins was done by growing the cells carrying the expression plasmids in 1 l of Luria-Bertani broth (Miller 1972) containing Ampicillin (100 μg/ml) and tetracyclin (10 μg/ml) at 28° C. Riboflavin (1 μg/ml) was also added to the medium since both monooxygenases are flavoproteins. When the absortion reached 0.5 at 600 nm, 1 mM isopropy-thio-b-galactoside (IPTG) was added to the culture. Cells were harvested 1.5 hr later, resuspended in 2 ml of 300 mM NaCl 5% glycerol 20 mM Tris-HCl pH 8.0 (Buffer A) containing 10 mM EDTA and 100 μg lysozyme and disrupted by three freeze/thaw cycles. Nucleic acids were digested by addition of MgCl2 (20 mM) RNAseA and DNAse I (10 μg each). The particulate fraction was removed by centrifugation at 14,000 RPM and the supernatant was mixed for 1 hr at 4° C. with 100 μl of a metal chelation agarose (Ni-NTA Superflow Qiagen, Valencia, Calif.) saturated with Ni(II) and equilibrated Buffer A containing 5 mM imidazole. The resin was washed bathchwise with 10 ml each of Buffer A containing 5, 10, 15, 20, 40, 80, 150 and 300 mM respectively. The bound proteins were eluted between 80 and 150 mM imidazole. Eluted proteins were concentrated by ultrafiltration with a Centricon device (cut off 10,000 Da, Amicon) and the buffer replaced by Buffer A. Homogeneity of the overexpressed proteins is shown in FIG. 3, which show a gel electrophoresis separation of proteins from control E. coli (lane 1), E. coli expressing ORF 1.3 (lane 2) and E. coli expressing ORF 2.4 (lane 3).

[0171] Each monooxygenase oxidized cyclohexanone as measured spectrophoto-metrically by monitoring the oxidation of NADPH at 340 nm. For example, monooxygenase activity from the expression of ORF 1.3 is shown in FIG. 4. No activity was observed when NADPH was replaced by NADH. The product of the cyclohexanone oxidation was confirmed to be caprolactone by GC-MS analysis. Monooxygenase 1 and 2 have different substrate specificity relative to the number of carbon atoms, the oxidation or the substitution of the ring. The specificity of each enzyme for various cyclic ketones is shown in Table 2. TABLE 2 Mono 1 Mono 2 SUBSTRATE CONC'N rate (min-1) rate (min-1) 1. cyclobutanone 0.1 mM 235 92 0.5 mM 171 96 2. cyclopentanone 0.1 mM 1.2 90 0.5 mM 7.0 120 3. 2-methylcyclopentanone 0.1 mM 40 120 0.5 mM 110 110 4. cyclohexanone 0.1 mM 160 100 0.5 mM 290 100 5. 2-methylcyclohexanone 0.1 mM 250 37 0.5 mM 260 97 6. cyclohex-2-ene-1-one 0.1 mM 2.3 64 0.5 mM 1.9 80 7. 2-(cyclohex-1-enyl)cyclo- 0.1 mM 160 hexanone 0.5 mM 260 2.4 8. 1,2-cyclohexanedione 0.1 mM 9 7.6 0.5 mM 52 34 9. 1,3-cyclohexanedione 0.1 mM 0.3 18 0.5 mM 1.2 60 10. 1,4-cyclohexanedione 0.1 mM 130 53 0.5 mM 210 88 11. cycloheptanone 0.1 mM 4.5 3.9 0.5 mM 18 8.6 12. cyclooctanone 0.1 mM 0.9 1.3 0.5 mM 0.4 1.3 13. cyclodecanone 0.1 mM 1.8 0.5 mM 1 1.2 14. cycloundecanone 0.1 mM 1.2 0.6 0.5 mM 1.4 0.9 15. cyclododecanone 0.1 mM 1 1.2 0.5 mM 0.9 1.8

Example 5 Conversion of Cyclohexanone into Caprolactone by Cell Suspentions

[0172] Twenty ml cultures of E. coli strains carrying plasmids pPCB1 and pPCB2 that express the monooxygenase ORF 1.3 and ORF 2.4 respectively were grown at 30° C. in LB medium containing Ampicillin (100 μg/ml) and tetracyclin (10 μg/ml). When the absorbance reached 0.1 at 600 nm, 1 mM IPTG was added to the culture to induce the monooxygenases. After 1 hr, the cultures were chilled and washed twice with M9 mineral medium (Sambrook, J., Fritsch, E. F. and Maniatis, T. Molecular Cloning: A Laboratory Manual, Second Edition, Cold Spring Harbor Laboratory Press, Cold Spring Harbor (1989)) and resuspended in 2 ml of the same medium containing 0.2% glucose and 100 ppm of cyclohexanone. After one hr the cells were removed from the culture by centrifugation and supernatant was analyzed by GC-MS as described in the General Methods. The GC-MS analysis indicated the disappearance of cyclohexanone and the appearance of caprolactone. When the rate of cyclohexanone oxidation was plotted as % cyclohexanone remaining vs. time it was seen that all cyclohexanone was oxidized in about 75 min.(FIG. 5).

Example 6 Expression and Activity of Hydroxycaproate Dehydrogenase by E. Coli Expressing ORF 2.2

[0173] ORF 2.2 encoding a member of the long chain Zn-dependent dehydrogenase was amplified by PCR using the primers 5′-ATGAAAGCATTCGCAATGAAGGCA-3′ (SEQ ID NO:45) and 5′-CCGCACGGAACCCGTCTCC-3′ (SEQ ID NO:48) and cloned in the expression vector pTrc/His-Topo to yield plasmid pPCB7.

[0174]E. coli strains carrying plasmid pPCB7 that express ORF 2.2 or plasmid pPCB1 that express ORF 1.3, here used as a negative control for dehydrogenase expression, were grown at 25° C. in LB medium containing Ampicillin (100 μg/ml). When the absorbance reached 0.1 at 600 nm, 1 mM IPTG was added to the cultures to induce the dehydrogenase or the monooxygenase 1.

[0175] After 3 hr, the cells were harvested, resuspended in 1 ml of 100 mM Tris Buffer pH 8 containing 10 mM EDTA, treated for 30 min with lyzozyme (10 μg/ml) at 0° C. and lysed by three freeze/thaw cycles. Brevibacterium sp. HCU was grown in LB at 30° C. until it reached 1.0 at 600 nm. Cells were harvested, resuspended in S12 medium containing 0.005% yeast extract and 0.1% cyclohexanone and incubated at 30° C. for six hr to induce the cyclohexanone degradation pathway. At that points cells were harvested and lysed by overnight treatment with lyzozyme (100 μg/ml) at 0° C. and freeze thaw cycles. Extracts of the two E. coli strains and the Brevibacterium were analyzed at 4° C. by non-denaturing electrophoresis on 12% acrylamide gels (PAGEr™, FMC Rockland, Me.) at 10 V/cm. Protein bands with hydroxycaproate dehydrogenase activity were detected by activity stain using containing 3-(4,5-dimethylthiazolyl)-2,5-diphenyl tetrazolium bromide (MTT) (25 μg/ml), phenazine metosulfate (2.5 μg/ml), NAD (0.15 mM) and hydroxycaproate (1 mM), ammonium sulfate (30 mM) in 100 mM Tris Buffer pH 8.5 (Johnson, E. A. and Lin, E. C., J. Bacteriol 169:2050 (1987)). A blue precipitate band indicated the catalysis of NAD reduction by hydroxycaproate and the subsequent reduction of the tetrazolium dye by NADH via the phenazine metosulfate.

[0176] As seen in FIG. 6 (gel electrophoresis protein separation) the E. coli strain expressing ORF 2.2 (lane 2) expressed a hydroxycaproate dehydrogenase that comigrated with that of Brevibacterium sp. HCU (lane 3). This band was not observed in the control E. coli strain (lane 1). The enzyme expressed by pPCB7, and the commigrating enzyme from Brevibacterium sp. HCU also oxidized cyclohexanol and catalyzed the first step of the oxidation of cyclohexanol into adipic acid as show in FIG. 7. FIG. 7 shows two gel strips illustrating protein separation from E. coil expressing ORF 2.2 (lanes 1 and 3) and Brevibacterium HCU (lanes 2 and 4).

[0177] An identical experiment was performed for the Fe-dependent dehydrogenase gene ORF 1.4. It was amplified from chromosomal DNA using the primers 5′-ATGGAGTCGCACAACGAAAACAC-3′ (SEQ ID:47) and 5′-GCTCACTCGGCCCACCAGC-3′ (SEQ ID:48), cloned in the expression vector pTRc-His2 Topo and expressed in E. col. Cell extracts of E. coli cells expressing ORF 1.4 as well as of cells not expressing it were analyzed by acrylimide gel electrophoresis on PhastTM Gels (Pharmacia Biotech, Piscataway, N.J.) and hydroxycaproate dehydrogenase activity was detected by the activity stain described above and shown in FIG. 8. The gel shown in FIG. 8 shows E. coli expressing ORF 1.4 (lanes 1, and 2) ORF 2.2 (lanes 3 and 4), the E. coli control (lane 5) and E. coli expressing ORF 1.3 (lane 6).

1 49 1 1377 DNA Brevibacterium sp HCU 1 atgatcgggc caagaacaca tttgactgct gtagatactg aacgcggttc agacctatcc 60 gaagaggctg tgggaacgaa tggattgggc accgcactta ccactggctc gggaatccaa 120 atccgtggcg ccgaacacta tgcacacttt tacgccaatg ctgtgtgcac aggtgaacca 180 gtcctacatc ccgagtcggg tcagggcctt ggagcgattg tgctctccgg tgacgaaagt 240 cgtcactcta acttactcct cccgttgctc cgaggcctcg tcgcacgaat gcagctgaaa 300 atccttcgta atccggacga cttcaacttc agttcgttgc ccaccatcgg cgactcaaaa 360 gcggccgacc aaccatacga cctattcatt tcgtcagaca gagagcgaat caacacaggg 420 agcacgcact tacccaagat gcgcgaccac actgccccag ttgttgggag tgtgtcggtt 480 gaaggactcg atgttgggtt cgcccgcgat cataatggtc tccatacgct cagacttttg 540 ggggatgcca catctgccca agtgctccat ggcgagacga actcctcaag aatcgttcgc 600 gacgaacgtt gggagggctg cttcgctgaa actgtgtccg ttttacgaag tcaacgatcc 660 atcgtgttgg tgggcgaggc tggagtaggc aaagcaactc tcgccgctct gggaatgaga 720 gccgtggatc ctcaccggcc gcttaacgag attgacgcag tacgagccaa agtggatggc 780 tgggacactg tccttcgatc gatcgctgag aatcttgacg ctggcaaagg actactcatc 840 cgtggagcag aagggctcac gagcagcgaa cgtacggaga ttcgatcact gttaaatgca 900 accgccgatc ccttcgtcgt cttgacagcc acaatcgact ttgacgatca atccacactt 960 acttcgaacg ccacagtcgc gccaactatt gtcattccac cactacgcca aaacccagaa 1020 cgtgtcgccc ccctgtggga cgccctcgcc gggccgggat ggcgacccgc aagactgacc 1080 gcccccgcgc ggaaagcact ttcccaatac atctggcccg ggaacctaag ggagcttcac 1140 cacattgccg caatgaccgt gcaaaacagt gctggctcag atattaccgt cgatatgctt 1200 cctgacaccg tccgatcagc accttcagga gcgacaatga tcgaaagagc ggaacggcac 1260 gcgctccttc aggctctcca acaagcagat ggaaatcggt ctcaggctgc agcaatcctc 1320 ggtgtctctc gggcaaccat ctatcgcaag attaagcaat acaaacttca ggaataa 1377 2 458 PRT Brevibacterium sp HCU 2 Met Ile Gly Pro Arg Thr His Leu Thr Ala Val Asp Thr Glu Arg Gly 1 5 10 15 Ser Asp Leu Ser Glu Glu Ala Val Gly Thr Asn Gly Leu Gly Thr Ala 20 25 30 Leu Thr Thr Gly Ser Gly Ile Gln Ile Arg Gly Ala Glu His Tyr Ala 35 40 45 His Phe Tyr Ala Asn Ala Val Cys Thr Gly Glu Pro Val Leu His Pro 50 55 60 Glu Ser Gly Gln Gly Leu Gly Ala Ile Val Leu Ser Gly Asp Glu Ser 65 70 75 80 Arg His Ser Asn Leu Leu Leu Pro Leu Leu Arg Gly Leu Val Ala Arg 85 90 95 Met Gln Leu Lys Ile Leu Arg Asn Pro Asp Asp Phe Asn Phe Ser Ser 100 105 110 Leu Pro Thr Ile Gly Asp Ser Lys Ala Ala Asp Gln Pro Tyr Asp Leu 115 120 125 Phe Ile Ser Ser Asp Arg Glu Arg Ile Asn Thr Gly Ser Thr His Leu 130 135 140 Pro Lys Met Arg Asp His Thr Ala Pro Val Val Gly Ser Val Ser Val 145 150 155 160 Glu Gly Leu Asp Val Gly Phe Ala Arg Asp His Asn Gly Leu His Thr 165 170 175 Leu Arg Leu Leu Gly Asp Ala Thr Ser Ala Gln Val Leu His Gly Glu 180 185 190 Thr Asn Ser Ser Arg Ile Val Arg Asp Glu Arg Trp Glu Gly Cys Phe 195 200 205 Ala Glu Thr Val Ser Val Leu Arg Ser Gln Arg Ser Ile Val Leu Val 210 215 220 Gly Glu Ala Gly Val Gly Lys Ala Thr Leu Ala Ala Leu Gly Met Arg 225 230 235 240 Ala Val Asp Pro His Arg Pro Leu Asn Glu Ile Asp Ala Val Arg Ala 245 250 255 Lys Val Asp Gly Trp Asp Thr Val Leu Arg Ser Ile Ala Glu Asn Leu 260 265 270 Asp Ala Gly Lys Gly Leu Leu Ile Arg Gly Ala Glu Gly Leu Thr Ser 275 280 285 Ser Glu Arg Thr Glu Ile Arg Ser Leu Leu Asn Ala Thr Ala Asp Pro 290 295 300 Phe Val Val Leu Thr Ala Thr Ile Asp Phe Asp Asp Gln Ser Thr Leu 305 310 315 320 Thr Ser Asn Ala Thr Val Ala Pro Thr Ile Val Ile Pro Pro Leu Arg 325 330 335 Gln Asn Pro Glu Arg Val Ala Pro Leu Trp Asp Ala Leu Ala Gly Pro 340 345 350 Gly Trp Arg Pro Ala Arg Leu Thr Ala Pro Ala Arg Lys Ala Leu Ser 355 360 365 Gln Tyr Ile Trp Pro Gly Asn Leu Arg Glu Leu His His Ile Ala Ala 370 375 380 Met Thr Val Gln Asn Ser Ala Gly Ser Asp Ile Thr Val Asp Met Leu 385 390 395 400 Pro Asp Thr Val Arg Ser Ala Pro Ser Gly Ala Thr Met Ile Glu Arg 405 410 415 Ala Glu Arg His Ala Leu Leu Gln Ala Leu Gln Gln Ala Asp Gly Asn 420 425 430 Arg Ser Gln Ala Ala Ala Ile Leu Gly Val Ser Arg Ala Thr Ile Tyr 435 440 445 Arg Lys Ile Lys Gln Tyr Lys Leu Gln Glu 450 455 3 681 DNA Brevibacterium sp HCU 3 atgtcattgc aacttatgag atgggtcttc gaagattggc agcgtgtaac aaaagaaccg 60 tcaaacgttc gctacgaaga gacaaccgaa ggcagcgttc caggcatctg ggtgctcccc 120 gacgaagcgg acgacgccaa gcccttcctg gttctccacg gtggaggctt cgcactgggc 180 tcgtcgaata gccatcgcaa attggccggc catctagcca agcaaagcgg cagacaagct 240 tttgtcgccg acttccgcct agcccccgaa cacccatttc cagcacagat agaagatgcg 300 ctcaccgtca tctccgcgat gaatagtcgg ggcatcccca ctgagaacat cacactggtc 360 ggcgacagcg caggagcgag catcgcgatc ggaactgttc tttcactgtt aaaagacgga 420 agagctctcc cccgacaggt cgtcaccatg tctccttggg tggatatgga aaactccggt 480 gagactatcg agtcaaacga cgcatacgac ttcctcatca cccgggatgg actacaggga 540 aacattgacc gctacctggc agtggagcgg atcctcgtga cgggactggt aaatccgcta 600 tacgcagatt tccatgggtt tccccgactg tacatctgcg ttagtgacac cgagtcctct 660 acgcggacag catccgtcta g 681 4 226 PRT Brevibacterium sp HCU 4 Met Ser Leu Gln Leu Met Arg Trp Val Phe Glu Asp Trp Gln Arg Val 1 5 10 15 Thr Lys Glu Pro Ser Asn Val Arg Tyr Glu Glu Thr Thr Glu Gly Ser 20 25 30 Val Pro Gly Ile Trp Val Leu Pro Asp Glu Ala Asp Asp Ala Lys Pro 35 40 45 Phe Leu Val Leu His Gly Gly Gly Phe Ala Leu Gly Ser Ser Asn Ser 50 55 60 His Arg Lys Leu Ala Gly His Leu Ala Lys Gln Ser Gly Arg Gln Ala 65 70 75 80 Phe Val Ala Asp Phe Arg Leu Ala Pro Glu His Pro Phe Pro Ala Gln 85 90 95 Ile Glu Asp Ala Leu Thr Val Ile Ser Ala Met Asn Ser Arg Gly Ile 100 105 110 Pro Thr Glu Asn Ile Thr Leu Val Gly Asp Ser Ala Gly Ala Ser Ile 115 120 125 Ala Ile Gly Thr Val Leu Ser Leu Leu Lys Asp Gly Arg Ala Leu Pro 130 135 140 Arg Gln Val Val Thr Met Ser Pro Trp Val Asp Met Glu Asn Ser Gly 145 150 155 160 Glu Thr Ile Glu Ser Asn Asp Ala Tyr Asp Phe Leu Ile Thr Arg Asp 165 170 175 Gly Leu Gln Gly Asn Ile Asp Arg Tyr Leu Ala Val Glu Arg Ile Leu 180 185 190 Val Thr Gly Leu Val Asn Pro Leu Tyr Ala Asp Phe His Gly Phe Pro 195 200 205 Arg Leu Tyr Ile Cys Val Ser Asp Thr Glu Ser Ser Thr Arg Thr Ala 210 215 220 Ser Val 225 5 1662 DNA Brevibacterium sp HCU 5 atgccaatta cacaacaact tgaccacgac gctatcgtca tcggcgccgg cttctccgga 60 ctagccattc tgcaccacct gcgtgaaatc ggcctagaca ctcaaatcgt cgaagcaacc 120 gacggcattg gaggaacttg gtggatcaac cgctacccgg gggtgcggac cgacagcgag 180 ttccactact actctttcag cttcagcaag gaagttcgtg acgagtggac atggactcaa 240 cgctacccag acggtgaaga agtttgcgcc tatctcaatt tcattgctga tcgacttgat 300 cttcggaagg acattcagct caactcacga gtgaatactg cccgttggaa tgagacggaa 360 aagtactggg acgtcatttt cgaagacggg tcctcgaaac gcgctcgctt cctcatcagc 420 gcaatgggtg cacttagcca ggcgattttc ccggccatcg acggaatcga cgaattcaac 480 ggcgcgaaat atcacactgc ggcttggcca gctgatggcg tagatttcac gggcaagaag 540 gttggagtca ttggggttgg ggcctcggga attcaaatca ttcccgagct cgccaagttg 600 gctggcgaac tattcgtatt ccagcgaact ccgaactatg tggttgagag caacaacgac 660 aaagttgacg ccgagtggat gcagtacgtt cgcgacaact atgacgaaat tttcgaacgc 720 gcatccaagc acccgttcgg ggtcgatatg gagtatccga cggattccgc cgtcgaggtt 780 tcagaagaag aacgtaagcg agtctttgaa agcaaatggg aggagggagg cttccatttt 840 gcaaacgagt gtttcacgga cctgggtacc agtcctgagg ccagcgagct ggcgtcagag 900 ttcatacgtt cgaagattcg ggaggtcgtt aaggaccccg ctacggcaga tctcctttgt 960 cccaagtcgt actcgttcaa cggtaagcga gtgccgaccg gccacggcta ctacgagacg 1020 ttcaatcgca cgaatgtgca ccttttggat gccaggggca ctccaattac tcggatcagc 1080 agcaaaggta tcgttcacgg agacaccgaa tacgaactag atgcaatcgt gttcgcaacc 1140 ggcttcgacg cgatgacagg tacgctcacc aacattgaca tcgtcggccg cgacggagtc 1200 atcctccgcg acaagtgggc ccaggatggg cttaggacaa acattggtct tactgtaaac 1260 ggcttcccga acttcctgat gtctcttgga cctcagaccc cgtactccaa ccttgttgtt 1320 cctattcagt tgggagccca atggatgcag cgattcctta agttcattca ggaacgcggc 1380 attgaagtgt tcgagtcgtc gagagaagct gaagaaatct ggaatgccga aaccattcgc 1440 ggcgctgaat ctacggtcat gtccatcgaa ggacccaaag ccggcgcatg gttcatcggc 1500 ggcaacattc ccggtaaatc acgtgagtac caggtgtata tgggcggcgg tcaggtctac 1560 caggactggt gccgcgaggc ggaagaatcc gactacgcca cttttctgaa tgctgactcc 1620 attgacggcg aaaaggttcg tgaatcggcg ggtatgaaat ag 1662 6 553 PRT Brevibacterium sp HCU 6 Met Pro Ile Thr Gln Gln Leu Asp His Asp Ala Ile Val Ile Gly Ala 1 5 10 15 Gly Phe Ser Gly Leu Ala Ile Leu His His Leu Arg Glu Ile Gly Leu 20 25 30 Asp Thr Gln Ile Val Glu Ala Thr Asp Gly Ile Gly Gly Thr Trp Trp 35 40 45 Ile Asn Arg Tyr Pro Gly Val Arg Thr Asp Ser Glu Phe His Tyr Tyr 50 55 60 Ser Phe Ser Phe Ser Lys Glu Val Arg Asp Glu Trp Thr Trp Thr Gln 65 70 75 80 Arg Tyr Pro Asp Gly Glu Glu Val Cys Ala Tyr Leu Asn Phe Ile Ala 85 90 95 Asp Arg Leu Asp Leu Arg Lys Asp Ile Gln Leu Asn Ser Arg Val Asn 100 105 110 Thr Ala Arg Trp Asn Glu Thr Glu Lys Tyr Trp Asp Val Ile Phe Glu 115 120 125 Asp Gly Ser Ser Lys Arg Ala Arg Phe Leu Ile Ser Ala Met Gly Ala 130 135 140 Leu Ser Gln Ala Ile Phe Pro Ala Ile Asp Gly Ile Asp Glu Phe Asn 145 150 155 160 Gly Ala Lys Tyr His Thr Ala Ala Trp Pro Ala Asp Gly Val Asp Phe 165 170 175 Thr Gly Lys Lys Val Gly Val Ile Gly Val Gly Ala Ser Gly Ile Gln 180 185 190 Ile Ile Pro Glu Leu Ala Lys Leu Ala Gly Glu Leu Phe Val Phe Gln 195 200 205 Arg Thr Pro Asn Tyr Val Val Glu Ser Asn Asn Asp Lys Val Asp Ala 210 215 220 Glu Trp Met Gln Tyr Val Arg Asp Asn Tyr Asp Glu Ile Phe Glu Arg 225 230 235 240 Ala Ser Lys His Pro Phe Gly Val Asp Met Glu Tyr Pro Thr Asp Ser 245 250 255 Ala Val Glu Val Ser Glu Glu Glu Arg Lys Arg Val Phe Glu Ser Lys 260 265 270 Trp Glu Glu Gly Gly Phe His Phe Ala Asn Glu Cys Phe Thr Asp Leu 275 280 285 Gly Thr Ser Pro Glu Ala Ser Glu Leu Ala Ser Glu Phe Ile Arg Ser 290 295 300 Lys Ile Arg Glu Val Val Lys Asp Pro Ala Thr Ala Asp Leu Leu Cys 305 310 315 320 Pro Lys Ser Tyr Ser Phe Asn Gly Lys Arg Val Pro Thr Gly His Gly 325 330 335 Tyr Tyr Glu Thr Phe Asn Arg Thr Asn Val His Leu Leu Asp Ala Arg 340 345 350 Gly Thr Pro Ile Thr Arg Ile Ser Ser Lys Gly Ile Val His Gly Asp 355 360 365 Thr Glu Tyr Glu Leu Asp Ala Ile Val Phe Ala Thr Gly Phe Asp Ala 370 375 380 Met Thr Gly Thr Leu Thr Asn Ile Asp Ile Val Gly Arg Asp Gly Val 385 390 395 400 Ile Leu Arg Asp Lys Trp Ala Gln Asp Gly Leu Arg Thr Asn Ile Gly 405 410 415 Leu Thr Val Asn Gly Phe Pro Asn Phe Leu Met Ser Leu Gly Pro Gln 420 425 430 Thr Pro Tyr Ser Asn Leu Val Val Pro Ile Gln Leu Gly Ala Gln Trp 435 440 445 Met Gln Arg Phe Leu Lys Phe Ile Gln Glu Arg Gly Ile Glu Val Phe 450 455 460 Glu Ser Ser Arg Glu Ala Glu Glu Ile Trp Asn Ala Glu Thr Ile Arg 465 470 475 480 Gly Ala Glu Ser Thr Val Met Ser Ile Glu Gly Pro Lys Ala Gly Ala 485 490 495 Trp Phe Ile Gly Gly Asn Ile Pro Gly Lys Ser Arg Glu Tyr Gln Val 500 505 510 Tyr Met Gly Gly Gly Gln Val Tyr Gln Asp Trp Cys Arg Glu Ala Glu 515 520 525 Glu Ser Asp Tyr Ala Thr Phe Leu Asn Ala Asp Ser Ile Asp Gly Glu 530 535 540 Lys Val Arg Glu Ser Ala Gly Met Lys 545 550 7 1245 DNA Brevibacterium sp HCU 7 atggagtcgc acaacgaaaa cacacttggc ctcggattac tacgccaacc cggcactgta 60 gtgttcggcc cagggcagag acgtgagctc ccgtccatag ccaaacgtta cggttcgacc 120 gtattgatct gcaccgacga acgcatgctc gctgaaccaa tgtgtattga cttgcaaaca 180 gcgttggaaa aagcgggaat gcgtgtcgtt gtatacggaa atgtgcgtcc tgacttaccc 240 cgagccgaca ttcagactgc aacacggaaa cttgcccacg acaaaatcga tgtcatcttc 300 ggtcttggcg gaggaagctg catggacttc gcaaaggtta tggggatcct acttctgtcc 360 ccaggcgacg tccgtgacat cttcggcgaa aacgtcgtct ccggccccgg tttacccgta 420 atcactgtgc ccaccactgg aggtaccggg gccgaggcga cttgtatttc agtggtgcac 480 gatgaggaaa aaggcgtgaa ggttggggtc gcaagtgcct atatgcaggc tgtggccacc 540 gtcatcgatc cagagttcac gcttactgcc ccagaggggc tgacggctgc gacggcgacg 600 gatgcactct cacatctggt ggagtcgtac accgcgtacg cgaaaaatcc ctcctcggac 660 gatattcggg atcaccttta tgtcggtaag aacctgctga cagacgtatg ggctgaacgt 720 gggctcaagc tcatttcgga cgggattcct gccctggcaa aagatctcac tgatctcaac 780 gcacgtacca atgtcatgct tgccgctttc tgcggcggga tgggaatcaa cactaccggc 840 acggcaggat gtcatgccct tcaatcaccg ctcagtgcgt tgactggaac atcgcacggc 900 ttcggggtgg gcgcgctgct tccttacgtg atgcggtaca acttaccagc tcgtacacca 960 gagtttgcac gtctcggtga gctagttggg gcggaccgtg gaagcactgt tttggaaagt 1020 gcccagcatg ccgtcgagaa agttgaatgg ctagtgtcaa ctattggggc gcccacagat 1080 ttaggtgcct tggggatgac cgaggcggat gtggcgggcg tcgctaaagc cgcagctgct 1140 tcaacccgtc tcatagccaa caacccccga cctttaccag ccgaaatcat ggaagaaatt 1200 ctgttgcggg gagttcgcgg agatagaagc tggtgggccg agtga 1245 8 414 PRT Brevibacterium sp HCU 8 Met Glu Ser His Asn Glu Asn Thr Leu Gly Leu Gly Leu Leu Arg Gln 1 5 10 15 Pro Gly Thr Val Val Phe Gly Pro Gly Gln Arg Arg Glu Leu Pro Ser 20 25 30 Ile Ala Lys Arg Tyr Gly Ser Thr Val Leu Ile Cys Thr Asp Glu Arg 35 40 45 Met Leu Ala Glu Pro Met Cys Ile Asp Leu Gln Thr Ala Leu Glu Lys 50 55 60 Ala Gly Met Arg Val Val Val Tyr Gly Asn Val Arg Pro Asp Leu Pro 65 70 75 80 Arg Ala Asp Ile Gln Thr Ala Thr Arg Lys Leu Ala His Asp Lys Ile 85 90 95 Asp Val Ile Phe Gly Leu Gly Gly Gly Ser Cys Met Asp Phe Ala Lys 100 105 110 Val Met Gly Ile Leu Leu Leu Ser Pro Gly Asp Val Arg Asp Ile Phe 115 120 125 Gly Glu Asn Val Val Ser Gly Pro Gly Leu Pro Val Ile Thr Val Pro 130 135 140 Thr Thr Gly Gly Thr Gly Ala Glu Ala Thr Cys Ile Ser Val Val His 145 150 155 160 Asp Glu Glu Lys Gly Val Lys Val Gly Val Ala Ser Ala Tyr Met Gln 165 170 175 Ala Val Ala Thr Val Ile Asp Pro Glu Phe Thr Leu Thr Ala Pro Glu 180 185 190 Gly Leu Thr Ala Ala Thr Ala Thr Asp Ala Leu Ser His Leu Val Glu 195 200 205 Ser Tyr Thr Ala Tyr Ala Lys Asn Pro Ser Ser Asp Asp Ile Arg Asp 210 215 220 His Leu Tyr Val Gly Lys Asn Leu Leu Thr Asp Val Trp Ala Glu Arg 225 230 235 240 Gly Leu Lys Leu Ile Ser Asp Gly Ile Pro Ala Leu Ala Lys Asp Leu 245 250 255 Thr Asp Leu Asn Ala Arg Thr Asn Val Met Leu Ala Ala Phe Cys Gly 260 265 270 Gly Met Gly Ile Asn Thr Thr Gly Thr Ala Gly Cys His Ala Leu Gln 275 280 285 Ser Pro Leu Ser Ala Leu Thr Gly Thr Ser His Gly Phe Gly Val Gly 290 295 300 Ala Leu Leu Pro Tyr Val Met Arg Tyr Asn Leu Pro Ala Arg Thr Pro 305 310 315 320 Glu Phe Ala Arg Leu Gly Glu Leu Val Gly Ala Asp Arg Gly Ser Thr 325 330 335 Val Leu Glu Ser Ala Gln His Ala Val Glu Lys Val Glu Trp Leu Val 340 345 350 Ser Thr Ile Gly Ala Pro Thr Asp Leu Gly Ala Leu Gly Met Thr Glu 355 360 365 Ala Asp Val Ala Gly Val Ala Lys Ala Ala Ala Ala Ser Thr Arg Leu 370 375 380 Ile Ala Asn Asn Pro Arg Pro Leu Pro Ala Glu Ile Met Glu Glu Ile 385 390 395 400 Leu Leu Arg Gly Val Arg Gly Asp Arg Ser Trp Trp Ala Glu 405 410 9 951 DNA Brevibacterium sp HCU 9 gtgggccgag tgagccacgt agggattttc ggcgctggct ctataggtac agcctttgcg 60 ctactgttcg ctgatgctgg cttcgctgtt cggatctttg atcctgatcc atcagctctg 120 gaacgatcaa gacatgtcat cgatcagcga atcacggaac ttcaacgatt caccttattg 180 gcatcgaatc caagtgaagt tcgtgagctc attgaaatcg tttcatctgc tcgaactgcg 240 gcatctggag caattcttgt ccaggaagca ggacctgaag atgtccagac taagcaacat 300 atatttgaag atctaactgc ggtcactagc gacgaaacga ttttggcgag tgcgtcctca 360 gcaattcctt cgagcagatt cgtagacgtt cattcagcgt ttcgatcgtt gattggccat 420 ccgggtaatc caccttactt gcttcgcgtg gttgaactag tgggtaatcc gtcgactgag 480 gagcagacca tattaagggc tggacagcta tatgagcagg ccggtctgtc cgctgtacgt 540 gtgaatcgag aggttgacgg gttcgtcttc aatcggatcc agggcgctgt acttcgtgaa 600 gcgtatgcgc tcgtcggagc tgagattata gatcctatgg acctagacac acttgttcaa 660 gatggtttag gtcttcgctg gtccgtcgcc ggcccgtttg cgacagttga tttgaacgta 720 cgtggtggga tcacagctca tgccgaacga atgggatctg cctatcaccg gatggccggc 780 gccttggaca cttccaaaga atggaccgac acgctggttg ccaaggtgaa ctgctctaga 840 cgcaaagccg tgcccctcga gcagtgggac caagctgtag ccgaccgaga tacgcaacta 900 atgaagcaat tgaacgcacg aacttctaac ggaggtacta cccgtgactg a 951 10 316 PRT Brevibacterium sp HCU 10 Val Gly Arg Val Ser His Val Gly Ile Phe Gly Ala Gly Ser Ile Gly 1 5 10 15 Thr Ala Phe Ala Leu Leu Phe Ala Asp Ala Gly Phe Ala Val Arg Ile 20 25 30 Phe Asp Pro Asp Pro Ser Ala Leu Glu Arg Ser Arg His Val Ile Asp 35 40 45 Gln Arg Ile Thr Glu Leu Gln Arg Phe Thr Leu Leu Ala Ser Asn Pro 50 55 60 Ser Glu Val Arg Glu Leu Ile Glu Ile Val Ser Ser Ala Arg Thr Ala 65 70 75 80 Ala Ser Gly Ala Ile Leu Val Gln Glu Ala Gly Pro Glu Asp Val Gln 85 90 95 Thr Lys Gln His Ile Phe Glu Asp Leu Thr Ala Val Thr Ser Asp Glu 100 105 110 Thr Ile Leu Ala Ser Ala Ser Ser Ala Ile Pro Ser Ser Arg Phe Val 115 120 125 Asp Val His Ser Ala Phe Arg Ser Leu Ile Gly His Pro Gly Asn Pro 130 135 140 Pro Tyr Leu Leu Arg Val Val Glu Leu Val Gly Asn Pro Ser Thr Glu 145 150 155 160 Glu Gln Thr Ile Leu Arg Ala Gly Gln Leu Tyr Glu Gln Ala Gly Leu 165 170 175 Ser Ala Val Arg Val Asn Arg Glu Val Asp Gly Phe Val Phe Asn Arg 180 185 190 Ile Gln Gly Ala Val Leu Arg Glu Ala Tyr Ala Leu Val Gly Ala Glu 195 200 205 Ile Ile Asp Pro Met Asp Leu Asp Thr Leu Val Gln Asp Gly Leu Gly 210 215 220 Leu Arg Trp Ser Val Ala Gly Pro Phe Ala Thr Val Asp Leu Asn Val 225 230 235 240 Arg Gly Gly Ile Thr Ala His Ala Glu Arg Met Gly Ser Ala Tyr His 245 250 255 Arg Met Ala Gly Ala Leu Asp Thr Ser Lys Glu Trp Thr Asp Thr Leu 260 265 270 Val Ala Lys Val Asn Cys Ser Arg Arg Lys Ala Val Pro Leu Glu Gln 275 280 285 Trp Asp Gln Ala Val Ala Asp Arg Asp Thr Gln Leu Met Lys Gln Leu 290 295 300 Asn Ala Arg Thr Ser Asn Gly Gly Thr Thr Arg Asp 305 310 315 11 777 DNA Brevibacterium sp HCU 11 gtactacccg tgactgactc attaggtgga gacgtctttc tcgttactgg cggtgctggc 60 ggtatcggaa aagccacgac gacggcactt gcagaacgtg gcggtcgggt ggtcttgacc 120 gatgttgatg aagacgctgg ctctcaagtc gccgacgaag tgcggcgcaa cactaacggt 180 gagattcgct ttgagccgtt ggatgtaaca aaccccgcag cggttactga gtgcgcgcaa 240 aagctcgatg atgaaggttg gcccgtgtac ggcctcatgg ccaatgcggg tatcgcccca 300 agttcatcag cggtcgacta ctccgatgaa ctgtggcttc ggaccgtgga catcaacctc 360 aatggagtgt tctggtgctg ccgcgaattc ggaaagcgaa tgattgctcg aggtcgcggg 420 tcggtagtca ctacttcatc tattgcaggt ttccggactg tgtcgcccga gcgccacgca 480 gcgtatggag ccactaaggc cgcggtcgcc catcttgtcg ggctactcgg cgtcgagtgg 540 gcaaaaaccg gtgtgcgggt caacgcggtc gcaccgggct atacgcgaac accgatcctc 600 gaagctttga aagccgaatc tcccgaaaca atcagcgaat ggactgaacg tatcccaaat 660 ggacgattga atgatccatc ggaaatcgcc gatggggtgg ttttcctcat gtcgaatgca 720 gccagaggca taactggaac ggtactgcac atcgacggtg gatacgctgc caggtag 777 12 258 PRT Brevibacterium sp HCU 12 Val Leu Pro Val Thr Asp Ser Leu Gly Gly Asp Val Phe Leu Val Thr 1 5 10 15 Gly Gly Ala Gly Gly Ile Gly Lys Ala Thr Thr Thr Ala Leu Ala Glu 20 25 30 Arg Gly Gly Arg Val Val Leu Thr Asp Val Asp Glu Asp Ala Gly Ser 35 40 45 Gln Val Ala Asp Glu Val Arg Arg Asn Thr Asn Gly Glu Ile Arg Phe 50 55 60 Glu Pro Leu Asp Val Thr Asn Pro Ala Ala Val Thr Glu Cys Ala Gln 65 70 75 80 Lys Leu Asp Asp Glu Gly Trp Pro Val Tyr Gly Leu Met Ala Asn Ala 85 90 95 Gly Ile Ala Pro Ser Ser Ser Ala Val Asp Tyr Ser Asp Glu Leu Trp 100 105 110 Leu Arg Thr Val Asp Ile Asn Leu Asn Gly Val Phe Trp Cys Cys Arg 115 120 125 Glu Phe Gly Lys Arg Met Ile Ala Arg Gly Arg Gly Ser Val Val Thr 130 135 140 Thr Ser Ser Ile Ala Gly Phe Arg Thr Val Ser Pro Glu Arg His Ala 145 150 155 160 Ala Tyr Gly Ala Thr Lys Ala Ala Val Ala His Leu Val Gly Leu Leu 165 170 175 Gly Val Glu Trp Ala Lys Thr Gly Val Arg Val Asn Ala Val Ala Pro 180 185 190 Gly Tyr Thr Arg Thr Pro Ile Leu Glu Ala Leu Lys Ala Glu Ser Pro 195 200 205 Glu Thr Ile Ser Glu Trp Thr Glu Arg Ile Pro Asn Gly Arg Leu Asn 210 215 220 Asp Pro Ser Glu Ile Ala Asp Gly Val Val Phe Leu Met Ser Asn Ala 225 230 235 240 Ala Arg Gly Ile Thr Gly Thr Val Leu His Ile Asp Gly Gly Tyr Ala 245 250 255 Ala Arg 13 771 DNA Brevibacterium sp HCU 13 atgaatcgac tcggcggaaa agtagcagtc attactgggg gcgccgcagg catggggcgc 60 atacagtctg aactgtatgc gagtgagggt gcacaagtag cggtagtaga tgtcaatgaa 120 caagaaggcc gtgccactgc cgatgcgata agggccagcg gcggggttgc aaactattgg 180 aaattggacg tttctgacga gtctgaagtt gaaatagtcg tctccgacat tgccaagaga 240 ttcggtgcga ttaacgtact agtgaacaac gcaggcgtca ccggtgccga taaaccaact 300 cacgagatcg acgaacggga cctggacctc gtactgagcg tcgatgtgaa aggagtattc 360 ttcatgacaa aacactgcat cccctacttt aaacaggctg gcggcggagc catcgtcaac 420 ttcgcgtcta tctatggtct ggtggggtcg caggagctta ccccgtacca cgcagccaaa 480 ggtgcggtcg ttgcccttac caaacaggac gcggtgactt acggaccgtc aaatatccga 540 gtgaatgcgg tagcacccgg aaccattttg actccactag tcaaggagct cggttcaagg 600 ggccccgatg gcttagatgg atatactaaa cttatgggtg ccaagcatcc gcttggtcgg 660 gtaggaaccc ccgaagaagt cgcggcagca acattgtttc tggcatccga agaagcttcg 720 ttcattactg gcgccgtcct tcccgttgac ggtggatata ctgcgcagtg a 771 14 256 PRT Brevibacterium sp HCU 14 Met Asn Arg Leu Gly Gly Lys Val Ala Val Ile Thr Gly Gly Ala Ala 1 5 10 15 Gly Met Gly Arg Ile Gln Ser Glu Leu Tyr Ala Ser Glu Gly Ala Gln 20 25 30 Val Ala Val Val Asp Val Asn Glu Gln Glu Gly Arg Ala Thr Ala Asp 35 40 45 Ala Ile Arg Ala Ser Gly Gly Val Ala Asn Tyr Trp Lys Leu Asp Val 50 55 60 Ser Asp Glu Ser Glu Val Glu Ile Val Val Ser Asp Ile Ala Lys Arg 65 70 75 80 Phe Gly Ala Ile Asn Val Leu Val Asn Asn Ala Gly Val Thr Gly Ala 85 90 95 Asp Lys Pro Thr His Glu Ile Asp Glu Arg Asp Leu Asp Leu Val Leu 100 105 110 Ser Val Asp Val Lys Gly Val Phe Phe Met Thr Lys His Cys Ile Pro 115 120 125 Tyr Phe Lys Gln Ala Gly Gly Gly Ala Ile Val Asn Phe Ala Ser Ile 130 135 140 Tyr Gly Leu Val Gly Ser Gln Glu Leu Thr Pro Tyr His Ala Ala Lys 145 150 155 160 Gly Ala Val Val Ala Leu Thr Lys Gln Asp Ala Val Thr Tyr Gly Pro 165 170 175 Ser Asn Ile Arg Val Asn Ala Val Ala Pro Gly Thr Ile Leu Thr Pro 180 185 190 Leu Val Lys Glu Leu Gly Ser Arg Gly Pro Asp Gly Leu Asp Gly Tyr 195 200 205 Thr Lys Leu Met Gly Ala Lys His Pro Leu Gly Arg Val Gly Thr Pro 210 215 220 Glu Glu Val Ala Ala Ala Thr Leu Phe Leu Ala Ser Glu Glu Ala Ser 225 230 235 240 Phe Ile Thr Gly Ala Val Leu Pro Val Asp Gly Gly Tyr Thr Ala Gln 245 250 255 15 10629 DNA Brevibacterium sp HCU 15 cttgcgacat ctgtacatca ttctcccacc agcgaaggtg gttgacgtta gggatgttcg 60 cattggatcc tgatgatctc caagaagcta agaaggctgt tctcgctgcc gtaggcagcc 120 acggtaaaca tgcaacaagt ttgttggatt cttggggccg gtctcacttg agattcggcg 180 ctccagacgc cgtcaacgag gtaccacatg cgtccgatga cgagatcgac aatgctcttt 240 tcgacctctg tcgagatcag atccagtcat tcgctggtga acttgagggg tcgggccagg 300 gcattctttt gtctgatgca gcgggccgtg tggtagaaac ctggacaagc gatgatcggg 360 ccaagaacac atttgactgc tgtagatact gaacgcggtt cagacctatc cgaagaggct 420 gtgggaacga atggattggg caccgcactt accactggct cgggaatcca aatccgtggc 480 gccgaacact atgcacactt ttacgccaat gctgtgtgca caggtgaacc agtcctacat 540 cccgagtcgg gtcagggcct tggagcgatt gtgctctccg gtgacgaaag tcgtcactct 600 aacttactcc tcccgttgct ccgaggcctc gtcgcacgaa tgcagctgaa aatccttcgt 660 aatccggacg acttcaactt cagttcgttg cccaccatcg gcgactcaaa agcggccgac 720 caaccatacg acctattcat ttcgtcagac agagagcgaa tcaacacagg gagcacgcac 780 ttacccaaga tgcgcgacca cactgcccca gttgttggga gtgtgtcggt tgaaggactc 840 gatgttgggt tcgcccgcga tcataatggt ctccatacgc tcagactttt gggggatgcc 900 acatctgccc aagtgctcca tggcgagacg aactcctcaa gaatcgttcg cgacgaacgt 960 tgggagggct gcttcgctga aactgtgtcc gttttacgaa gtcaacgatc catcgtgttg 1020 gtgggcgagg ctggagtagg caaagcaact ctcgccgctc tgggaatgag agccgtggat 1080 cctcaccggc cgcttaacga gattgacgca gtacgagcca aagtggatgg ctgggacact 1140 gtccttcgat cgatcgctga gaatcttgac gctggcaaag gactactcat ccgtggagca 1200 gaagggctca cgagcagcga acgtacggag attcgatcac tgttaaatgc aaccgccgat 1260 cccttcgtcg tcttgacagc cacaatcgac tttgacgatc aatccacact tacttcgaac 1320 gccacagtcg cgccaactat tgtcattcca ccactacgcc aaaacccaga acgtgtcgcc 1380 cccctgtggg acgccctcgc cgggccggga tggcgacccg caagactgac cgcccccgcg 1440 cggaaagcac tttcccaata catctggccc gggaacctaa gggagcttca ccacattgcc 1500 gcaatgaccg tgcaaaacag tgctggctca gatattaccg tcgatatgct tcctgacacc 1560 gtccgatcag caccttcagg agcgacaatg atcgaaagag cggaacggca cgcgctcctt 1620 caggctctcc aacaagcaga tggaaatcgg tctcaggctg cagcaatcct cggtgtctct 1680 cgggcaacca tctatcgcaa gattaagcaa tacaaacttc aggaataaca ctctccgggc 1740 tccacacgaa gatgtatatt ctcgcttgcc catgacgtca tttaggtctg gacaggtgcg 1800 caccgtcacg cttggagccg ggttcctgta cgagctcgcc acataatctg tgaagcttcc 1860 atcatgaaat cttctgcgcc tgcaaggcca ggaatgttcc gctgccgctc cgaaatagaa 1920 gtgatactta ctccgagtat gatcgggctt caccctccgt cgtaaataat tgcgtagtca 1980 tcgcggacgc aaacgttgtt acaccactgc ctccccgatc aacgcgtgcc accttggtgc 2040 taaagggccc cgtacgtgcc cagaataccc tcgtccaata ccgccacttt cttgcacagc 2100 accgaagatt tgcaaaaacc gttaagcgat ttcccgcggt atagattcag acgaattgtt 2160 ggaggggctt tctacaaggt aactgagcag gtccactact tcaccggtgc tcgttggtcc 2220 gttgataacc ccggtcattc cgccattgga taagcgtgca cggccttcgg ctggccccac 2280 tctggactgt tgcaggaagt ggctagccaa ttgagtagcg gacacgctcc gaagctcgat 2340 agtcgtcgag ttaaacactg gccctgcgcc aatacaccag cagcttctcc ggtggcccag 2400 aggacatcac caaccgattc ctttaacgcg aatgaaacct ccatcggaga gcatgtgggc 2460 cagggtccga ccctatgagc cgtcggcgcg tagcgacggt agagtttcct actgttcgcc 2520 agggtccgaa atgctcacga actaggtcac gccagactct gacaaccagg tatcggaaga 2580 cgatcccctc gacgcctgtt ctcgagcagt cggggcttct tccgggtatt cgaggacagc 2640 ggttccattc gcgtccattg gtctttgccg aagcctcagc gccgttgccg tgtagtccct 2700 tatccagcgt gtcagcccaa agacctcgga tagaggagac ataccctggc ttcgcggctc 2760 gaccactcgc ccgcggagtt atctcgtaag cttcgatcga gtgcgcggag actccgacct 2820 cctcgtctca gaaagtcggg gaacacagat tgttcgccgg atagacattg acaagatctc 2880 taccttgact cggacctcct gccactcacc ctccaacaat catgactaag cgtggcacca 2940 acgagagacc tggaccggaa aagatccaca ttcgaagggg caaaacttcc acttgtgtct 3000 caaactgcga ctccgttgct tcaacctgag aatcgacttc ccatcggttc aacccccttg 3060 aacactggtt ccaacgactc attcgagtcc ctcggaacag tcagataagg aggtcacgtt 3120 gactgcgccc caccccacag acccacttgg cgagatttac gccgaatggg ataaggaatt 3180 tcgcgaacac cccaccatgt cattgcaact tatgagatgg gtcttcgaag attggcagcg 3240 tgtaacaaaa gaaccgtcaa acgttcgcta cgaagagaca accgaaggca gcgttccagg 3300 catctgggtg ctccccgacg aagcggacga cgccaagccc ttcctggttc tccacggtgg 3360 aggcttcgca ctgggctcgt cgaatagcca tcgcaaattg gccggccatc tagccaagca 3420 aagcggcaga caagcttttg tcgccgactt ccgcctagcc cccgaacacc catttccagc 3480 acagatagaa gatgcgctca ccgtcatctc cgcgatgaat agtcggggca tccccactga 3540 gaacatcaca ctggtcggcg acagcgcagg agcgagcatc gcgatcggaa ctgttctttc 3600 actgttaaaa gacggaagag ctctcccccg acaggtcgtc accatgtctc cttgggtgga 3660 tatggaaaac tccggtgaga ctatcgagtc aaacgacgca tacgacttcc tcatcacccg 3720 ggatggacta cagggaaaca ttgaccgcta cctggcagtg gagcggatcc tcgtgacggg 3780 actggtaaat ccgctatacg cagatttcca tgggtttccc cgactgtaca tctgcgttag 3840 tgacaccgag tcctctacgc ggacagcatc cgtctagccg aacgtgcgaa gactgccaat 3900 gtcgacgtaa cgctgtcggt agaacaaggc cagcaacacg tgttccccat gcaagcaggc 3960 aaccaccctg cagccgacaa agcgatctcg gaaatcgtcg cttggtgcca ctgaaaacca 4020 aacaacatct cttcaacgtt gaaagatcga ggaaccatgc caattacaca acaacttgac 4080 cacgacgcta tcgtcatcgg cgccggcttc tccggactag ccattctgca ccacctgcgt 4140 gaaatcggcc tagacactca aatcgtcgaa gcaaccgacg gcattggagg aacttggtgg 4200 atcaaccgct acccgggggt gcggaccgac agcgagttcc actactactc tttcagcttc 4260 agcaaggaag ttcgtgacga gtggacatgg actcaacgct acccagacgg tgaagaagtt 4320 tgcgcctatc tcaatttcat tgctgatcga cttgatcttc ggaaggacat tcagctcaac 4380 tcacgagtga atactgcccg ttggaatgag acggaaaagt actgggacgt cattttcgaa 4440 gacgggtcct cgaaacgcgc tcgcttcctc atcagcgcaa tgggtgcact tagccaggcg 4500 attttcccgg ccatcgacgg aatcgacgaa ttcaacggcg cgaaatatca cactgcggct 4560 tggccagctg atggcgtaga tttcacgggc aagaaggttg gagtcattgg ggttggggcc 4620 tcgggaattc aaatcattcc cgagctcgcc aagttggctg gcgaactatt cgtattccag 4680 cgaactccga actatgtggt tgagagcaac aacgacaaag ttgacgccga gtggatgcag 4740 tacgttcgcg acaactatga cgaaattttc gaacgcgcat ccaagcaccc gttcggggtc 4800 gatatggagt atccgacgga ttccgccgtc gaggtttcag aagaagaacg taagcgagtc 4860 tttgaaagca aatgggagga gggaggcttc cattttgcaa acgagtgttt cacggacctg 4920 ggtaccagtc ctgaggccag cgagctggcg tcagagttca tacgttcgaa gattcgggag 4980 gtcgttaagg accccgctac ggcagatctc ctttgtccca agtcgtactc gttcaacggt 5040 aagcgagtgc cgaccggcca cggctactac gagacgttca atcgcacgaa tgtgcacctt 5100 ttggatgcca ggggcactcc aattactcgg atcagcagca aaggtatcgt tcacggagac 5160 accgaatacg aactagatgc aatcgtgttc gcaaccggct tcgacgcgat gacaggtacg 5220 ctcaccaaca ttgacatcgt cggccgcgac ggagtcatcc tccgcgacaa gtgggcccag 5280 gatgggctta ggacaaacat tggtcttact gtaaacggct tcccgaactt cctgatgtct 5340 cttggacctc agaccccgta ctccaacctt gttgttccta ttcagttggg agcccaatgg 5400 atgcagcgat tccttaagtt cattcaggaa cgcggcattg aagtgttcga gtcgtcgaga 5460 gaagctgaag aaatctggaa tgccgaaacc attcgcggcg ctgaatctac ggtcatgtcc 5520 atcgaaggac ccaaagccgg cgcatggttc atcggcggca acattcccgg taaatcacgt 5580 gagtaccagg tgtatatggg cggcggtcag gtctaccagg actggtgccg cgaggcggaa 5640 gaatccgact acgccacttt tctgaatgct gactccattg acggcgaaaa ggttcgtgaa 5700 tcggcgggta tgaaatagcc cagcagtctc gttcgggccc tcaccctgtg gccaagcccc 5760 acgtctcggc ggcaagctga tcgctcaaaa cacttgcagc cgcgtctgct cgaaaccgca 5820 atctttcaac caacgaagat ggtgaacatt tatggagtcg cacaacgaaa acacacttgg 5880 cctcggatta ctacgccaac ccggcactgt agtgttcggc ccagggcaga gacgtgagct 5940 cccgtccata gccaaacgtt acggttcgac cgtattgatc tgcaccgacg aacgcatgct 6000 cgctgaacca atgtgtattg acttgcaaac agcgttggaa aaagcgggaa tgcgtgtcgt 6060 tgtatacgga aatgtgcgtc ctgacttacc ccgagccgac attcagactg caacacggaa 6120 acttgcccac gacaaaatcg atgtcatctt cggtcttggc ggaggaagct gcatggactt 6180 cgcaaaggtt atggggatcc tacttctgtc cccaggcgac gtccgtgaca tcttcggcga 6240 aaacgtcgtc tccggccccg gtttacccgt aatcactgtg cccaccactg gaggtaccgg 6300 ggccgaggcg acttgtattt cagtggtgca cgatgaggaa aaaggcgtga aggttggggt 6360 cgcaagtgcc tatatgcagg ctgtggccac cgtcatcgat ccagagttca cgcttactgc 6420 cccagagggg ctgacggctg cgacggcgac ggatgcactc tcacatctgg tggagtcgta 6480 caccgcgtac gcgaaaaatc cctcctcgga cgatattcgg gatcaccttt atgtcggtaa 6540 gaacctgctg acagacgtat gggctgaacg tgggctcaag ctcatttcgg acgggattcc 6600 tgccctggca aaagatctca ctgatctcaa cgcacgtacc aatgtcatgc ttgccgcttt 6660 ctgcggcggg atgggaatca acactaccgg cacggcagga tgtcatgccc ttcaatcacc 6720 gctcagtgcg ttgactggaa catcgcacgg cttcggggtg ggcgcgctgc ttccttacgt 6780 gatgcggtac aacttaccag ctcgtacacc agagtttgca cgtctcggtg agctagttgg 6840 ggcggaccgt ggaagcactg ttttggaaag tgcccagcat gccgtcgaga aagttgaatg 6900 gctagtgtca actattgggg cgcccacaga tttaggtgcc ttggggatga ccgaggcgga 6960 tgtggcgggc gtcgctaaag ccgcagctgc ttcaacccgt ctcatagcca acaacccccg 7020 acctttacca gccgaaatca tggaagaaat tctgttgcgg ggagttcgcg gagatagaag 7080 ctggtgggcc gagtgagcca cgtagggatt ttcggcgctg gctctatagg tacagccttt 7140 gcgctactgt tcgctgatgc tggcttcgct gttcggatct ttgatcctga tccatcagct 7200 ctggaacgat caagacatgt catcgatcag cgaatcacgg aacttcaacg attcacctta 7260 ttggcatcga atccaagtga agttcgtgag ctcattgaaa tcgtttcatc tgctcgaact 7320 gcggcatctg gagcaattct tgtccaggaa gcaggacctg aagatgtcca gactaagcaa 7380 catatatttg aagatctaac tgcggtcact agcgacgaaa cgattttggc gagtgcgtcc 7440 tcagcaattc cttcgagcag attcgtagac gttcattcag cgtttcgatc gttgattggc 7500 catccgggta atccacctta cttgcttcgc gtggttgaac tagtgggtaa tccgtcgact 7560 gaggagcaga ccatattaag ggctggacag ctatatgagc aggccggtct gtccgctgta 7620 cgtgtgaatc gagaggttga cgggttcgtc ttcaatcgga tccagggcgc tgtacttcgt 7680 gaagcgtatg cgctcgtcgg agctgagatt atagatccta tggacctaga cacacttgtt 7740 caagatggtt taggtcttcg ctggtccgtc gccggcccgt ttgcgacagt tgatttgaac 7800 gtacgtggtg ggatcacagc tcatgccgaa cgaatgggat ctgcctatca ccggatggcc 7860 ggcgccttgg acacttccaa agaatggacc gacacgctgg ttgccaaggt gaactgctct 7920 agacgcaaag ccgtgcccct cgagcagtgg gaccaagctg tagccgaccg agatacgcaa 7980 ctaatgaagc aattgaacgc acgaacttct aacggaggta ctacccgtga ctgactcatt 8040 aggtggagac gtctttctcg ttactggcgg tgctggcggt atcggaaaag ccacgacgac 8100 ggcacttgca gaacgtggcg gtcgggtggt cttgaccgat gttgatgaag acgctggctc 8160 tcaagtcgcc gacgaagtgc ggcgcaacac taacggtgag attcgctttg agccgttgga 8220 tgtaacaaac cccgcagcgg ttactgagtg cgcgcaaaag ctcgatgatg aaggttggcc 8280 cgtgtacggc ctcatggcca atgcgggtat cgccccaagt tcatcagcgg tcgactactc 8340 cgatgaactg tggcttcgga ccgtggacat caacctcaat ggagtgttct ggtgctgccg 8400 cgaattcgga aagcgaatga ttgctcgagg tcgcgggtcg gtagtcacta cttcatctat 8460 tgcaggtttc cggactgtgt cgcccgagcg ccacgcagcg tatggagcca ctaaggccgc 8520 ggtcgcccat cttgtcgggc tactcggcgt cgagtgggca aaaaccggtg tgcgggtcaa 8580 cgcggtcgca ccgggctata cgcgaacacc gatcctcgaa gctttgaaag ccgaatctcc 8640 cgaaacaatc agcgaatgga ctgaacgtat cccaaatgga cgattgaatg atccatcgga 8700 aatcgccgat ggggtggttt tcctcatgtc gaatgcagcc agaggcataa ctggaacggt 8760 actgcacatc gacggtggat acgctgccag gtagagaaaa gagtcctcga tctactctgt 8820 ccgtccagca ccatcgtctg ggtccatcaa tacgtttatt tacttgtgac gcctcaatat 8880 caagattcag aatttgtaat tgtccaaccc cagaactcca cactggaatc cggacgatcg 8940 cttaattcac cgtactcttt cggcattcga attgaacagt gaataacgag attccactca 9000 aggcgagaga tagagcagag tcaccaattg cagctgcaag aattaggcat tttgtaattt 9060 cttattatga cacgaaaacc gtacacagta cacagaacaa tacaatttca acctgacatt 9120 gggagataac aatgaatcga ctcggcggaa aagtagcagt cattactggg ggcgccgcag 9180 gcatggggcg catacagtct gaactgtatg cgagtgaggg tgcacaagta gcggtagtag 9240 atgtcaatga acaagaaggc cgtgccactg ccgatgcgat aagggccagc ggcggggttg 9300 caaactattg gaaattggac gtttctgacg agtctgaagt tgaaatagtc gtctccgaca 9360 ttgccaagag attcggtgcg attaacgtac tagtgaacaa cgcaggcgtc accggtgccg 9420 ataaaccaac tcacgagatc gacgaacggg acctggacct cgtactgagc gtcgatgtga 9480 aaggagtatt cttcatgaca aaacactgca tcccctactt taaacaggct ggcggcggag 9540 ccatcgtcaa cttcgcgtct atctatggtc tggtggggtc gcaggagctt accccgtacc 9600 acgcagccaa aggtgcggtc gttgccctta ccaaacagga cgcggtgact tacggaccgt 9660 caaatatccg agtgaatgcg gtagcacccg gaaccatttt gactccacta gtcaaggagc 9720 tcggttcaag gggccccgat ggcttagatg gatatactaa acttatgggt gccaagcatc 9780 cgcttggtcg ggtaggaacc cccgaagaag tcgcggcagc aacattgttt ctggcatccg 9840 aagaagcttc gttcattact ggcgccgtcc ttcccgttga cggtggatat actgcgcagt 9900 gacattctca ggacgcggac gcaattcttg tgacagaatt ggttcacctc gcctgtatac 9960 tgcccctcac caaaactgca ataaacgacc ggacgaggca ccgatttttg aagttgacag 10020 gattacgcac tttaccggac agacgtagct gtgatcggct aaccatagac gttggaaggc 10080 ttcttcgatg acgatcgact ccgtcacaat acgcaggaat ggttgttggt cggtgagcct 10140 gtgtacagga agtaatattt tggtaaccct cggcatagat cgcagttggg gcagtggcgt 10200 ctgactcaaa ccgccggacg acaaatcatc ggcgaaagaa gccggtccgc atctcgaact 10260 gcactggtca caagatagag cttcatcgat gcccgaggca cacgcctagt acgggaatca 10320 acgagtgttc gatagcctcg gcgcagaggc cgaagtcggc cgttctccct gatgttcctg 10380 gtcccggcga gataactaat gactatgttg tcgaactcgt cgagcacgct cgcctcgaac 10440 tcagctcagt ctttggacac gagaatcgga gcgcacgcgt tcacctcggc aaggaggtga 10500 aagaggttca acgtgaacga atcggcattg tcgatgagca gagtgcgggt cgcgctcgtc 10560 ccctcacgtg tcgcgatctt ctagagtcga cctgcaggca tgctgcttaa gggctcatat 10620 catcgaaat 10629 16 11471 DNA Brevibacterium sp HCU 16 gcaccgacga cgaaccgccg gcgtaccgac gctggctgcg ctggagcccc ggtgcccacg 60 actggcgcac cgggacgagc atgaccgtgc ccatggtggc cgtcatcatc gtctgcgtga 120 tcggcttcgg tccggccgcc ggggctgtcg cggtcttcgg cgcactcgtc tcgatgtgga 180 acccgggcgg gtcgctgcag cggcgactgc gcaggttcgc aatcgtctgc ccgctgttcc 240 cggcctcgat ggccatcggt gtgctcacca gcagatggcc gtggctggct ctcggtgcgc 300 aggtcgtgct cattcttgtc atcaccacgg cctaccatca cttcatgacc gggcccggac 360 ccggaccgct gcaccttttc tacgcctcgt gcatcggcgg ctacctcggc gcgaccgggc 420 aggggtgggg tgcggccggc atcaccgcct tcgcgagctg tctgaccgcg gccctcactc 480 tgctcgggct cttcgggccc gtcgtcgcgg gcctcgtccg caacggactc ggccgcaacg 540 ggagacgtcg tcctccagtt gaagccgagg agggctccgg cgtgccgggc gatctcgtga 600 cggctcctgc cgtgatcgac gaagacgcct ctcccgtctt cggtcccggc gcggtctcga 660 ccggcctgcg ctgctcgacc gccgggctgc tggccggggc ggtcgccctg ctgctgtcct 720 tcgaccactc ctactgggcc gtgctgtcgg cgacgatcgt cctccacggc gggcaagaca 780 ctccggcgac cgtgacccgc gcgcgccacc gagtgctggg caccctcggc ggggtcgcga 840 tcgtcgcact gctggctctg acccatccgg ggccggtcgt tcaactgctc gtcatcgtcc 900 tcgccgtctg ggggatgaat gtgatcatgg cctggcacta cgccgtggcc gcagcgttca 960 tcacggtgat gacgctgcag gccaacctgc tcatgctcgg cgagcaagcc actcccgaac 1020 tcatcatcga acgcctcatc gccaccggcg tcggcgtcgc cgcggcactg atcgtcctcg 1080 cctgctcgac cgggcgtgca cgaaggatcc tctcgaggtc actgtggttc gcctgtccga 1140 ttctgggaca gcggcagacc gggcagagac gatagcctcg aaccggaacg gcttgataag 1200 agcccgcccg gatctgttgc ggaatgaacc gcgccctgcc ggacgagctc ggccgggccg 1260 caatggcttc aatggatgaa gagaaagggt ggccgtgatg aaagcattcg caatgaaggc 1320 acagggcgca gcgctcgaag agatcgagtt ggatcgtccg aagcccatgg gcagagaagt 1380 tctgctcaag gtgacgcacg ccggtgtgtg tcataccgac acccatgttc aggacggcgg 1440 ctacgatctg gggtcacggg ggaccctcga tatgtcgacc agaggcgtca cctacccctg 1500 cgtgatgggc cacgagaccg tcggcgaggt cgtcgaagtc ggcgaggacg tcacagacgt 1560 cgcagtcggc gacacgtgcc tcgccttccc ctggatcggg tgcggggaat gcggaaaatg 1620 cgcccatgga catgagaacg cctgcgacaa cggtcgcgct ctcggcatca tccagttcgg 1680 cggcttcgcc gaatacctgc tcctgccgga tcagcggtat gccatcgatg tggctggagt 1740 cgatccggct tgggcggcca cgctcgcctg ctcgggtgtg acctcgtact cctccgctcg 1800 aaaagccaca gcgacggtca atcccgacga acccatcggc gtgatgggag tcggcggggt 1860 cggcatgatg acagtcgccg ccctcgtcgc cctcggccac aagaacatca tcgcgatcga 1920 cgtctccgac gagaacctcg catccgcgca ggaactcggc gccaccttga ccgtgaattc 1980 gaagaatgcg accagccacg acctcgtcga ggccgcaggc ggacagttca tcgcaatcat 2040 cgacttggtc aacaccggtg acaccgtcgc gctggccttc gatgcgctct cccgcgcagg 2100 caagatcgtc caggtcggac tgttcggcgg cgagttcgtg gtcccgacgg cgatcatggc 2160 tctcaaaggt ctgaccctgc agggtaacta cgtcggcacg gtcgaagaag tccgcgaggt 2220 cgtcgagctg gcccggcagg gttcgctgcc gaagctgccg atcaccggcg gcacgctgaa 2280 cgtcgacggc gtcaatgacg gtctggagcg gctgcgcacg ggccgagctc gcggtcgcac 2340 ggtgctgacc ccctgacttg tctgacctcg tgaacccaac gtcacgcagc ctcacgcgac 2400 attgccggcc tcctcgcgtc cgaggaggcc ggcaatgtca tacgtgtttg tccgacagat 2460 ctatcagctg gagaccagtt ccgaacgcgc tgtgatccgg gcgcgcggtc cggacgagca 2520 ttcaacgcgc tcagctgagg aaacgtccct gctccaggcc gagagcgcgc agcttccggt 2580 agagcgtcga gcgagcgatg ccgagctgtt ctgcggcgat cgacttgttc ccgcctgctt 2640 cgttgagcac tcggatgacg gtttcgcgtt cggtctgctc gagagaggtc agctcacggc 2700 cgctggtgat cgtccggtat tcggcgggca ggtgctcgag accgatgtcg gagctcatgg 2760 ccttcggcag cgatgagacg aggacggatg cgagttcgcg cacgttgccc ggccagtggt 2820 gagcggccag agacttccgc gtcgccggct gcagccgcgg cgctcgaggt ccggagacat 2880 gctcggtgag tatgacgcgg gcgagatcgt cgatctcgtc ggtgcggtgc cgcagaggcg 2940 agacataggc cctccgcagg aaatgtgagc tcagcccgct ggcgtcatcg ccgcgcagct 3000 ccgtcgatga ggtcgccgtc agcggggaac cggcctcgtt cgtttcgatg acgagcgtgc 3060 ggacctccgc ggccgcctcg gcggggacct catcgatcct cgtgatcaac agggccgagc 3120 cctcatcgat ctgcgcccgc aggcggggca gatccgctgc agtgagaccg gatccggcga 3180 ccgtgagcag attgtccgcg aagccccaga gccgggtcag atacgcggcg gtccgggcct 3240 tgccgacacc gggctcaccg gtgatgagga cgggaccggt ctgctgtgcg aagccatcga 3300 gctgagactg cagctgccgg gtggccaggc tgcggccggg cagacgttcg acgcccgaac 3360 gcgaaggacc tgtgagcaga gcgagcgcag gcgccgccgt atgtccactc ccggcaacgg 3420 gctctgtgag agcgcgcagc tccataacca cgcccagggg ctcggcggca tcgctgaccc 3480 ggcgggcagt gacttcgacg tctcggccgt cggccaagcg cagagtctcg gtgtggctgg 3540 ggcggtcggg gacgatgccg ctcgcccagt cccacagcat cgcctgatca gagtagtcga 3600 ggtagctcga cgccaccggg gtggcgatga cggtatcggg actcatggcg acgacggcct 3660 tcgccgagga gcgcctgacc tgggcgtatt cacgcaggag acggcgttcc gtgcgggagg 3720 actggccgta gagccgctcc tcgatatcgg agacagcggc ggagatgagc ggagccatga 3780 gatcgttgac atcaccgatt tcgcacgtga tgtcgaggat gccgacgacg gaccggttga 3840 tcgggtggac gatcggtgcg ccgacacagg cgaagcggtg gagggactcg agcagatgtt 3900 cctcaccctt gacccggaat ggggtgcgct cctcgagtgc tgtgccgatg ccgttggtgc 3960 ccgcgaactc ctcagcgaat tggaaacccg gtgccacggt cgcactgtcg agttgggaga 4020 gcagctcgtg cttgcccgtc cagcggtcga tgatgcgggc atcacggtcc gccagaagga 4080 tggtcaccgg agcgtcctgg agctgagtcg agaggcgatc gagaaccgga cgtgccgcga 4140 gcagcacccg gttatccggg atgccgtcgt cggtgaaggg cagctcgcgt gccgaacggt 4200 cgacgccgat gacctgacag cggcgccatg accgatcgat ctcggcccga atagccgccg 4260 aatcaggaag cgcctgcgcg tcgaagtcaa cgacaggctc tgctgcggct gcggttctgt 4320 ggcgagcggc tgtgctcaat gtcaacacct cgatgtgttc gatgactgac ggccttggct 4380 atgaccctcc attctaccgt tgccacttcg ggagtggagt gtcccacaat gcaacaccgg 4440 cggacgagag gccgcgtcac gcggtgacgg aagcctcctc ggtgaggtct gacgtggcgt 4500 tcagacgcac cgttgcaata tgggacacgg tcagttccgt cggcgaaagt agtctgatgc 4560 caccaatcaa ccgccgtcac cgtcgccggc gtcaggaatg atggcgcagc agtgcaaaga 4620 cggacagcag aaagcaggtg tcgcaatgag tggaaacgag atctcggaag tcgccagggg 4680 attcacctac ctcgaaggac cgcggtggca tgatggccga ctgtggttcg tggacttcta 4740 cacgtacacg gtcaacgcgg tcaacgatga cggcagcatc gaggagatcg ccgtcgtcga 4800 ccagcagccc tcgggcctgg gctggctgcc cgacgggcgg ctgctcatcg tgtcgatgaa 4860 ggaccgcaag atcctacgcc gcgaagagga cggcaccctc gtcgaacatg ccgacatctc 4920 cgcccactgt gtcggccacg ccaatgacat ggtcgtcgcg gagaacgggc aggcctacgt 4980 cggcgagttc ggcttcgacc tcatgggcgg ggccgatcac aagttcgcca atgtcatctc 5040 gtcaacaccg acggcacctc ggagtcgtcg ccagcggact ctccttcccc aacggcatgg 5100 tcatcactcc cgacggcaag acgctcatcg tcaacgaact cttcggcaac aagatcaccg 5160 ccttcgacat cggagcggac ggaaagctcg ccaataagcg cgacttcgcg aacttcggtg 5220 agatcggaga cgaaccggac gtggcgaagc ggatcgaggc tgcgacgatc gttcccgacg 5280 gtctcgccct cgacgccgag ggcgcggtgt ggatcgcgaa caccgtcaac cagaacgcca 5340 cccgcatcgc cgaaggcgga cagatcctcg acaccgtcga caccgctccc gaagggatct 5400 tcgcagtggc actcggcggc gacgacggca agacgctctt cctgtgtgcg gcccccgact 5460 gggatgaagg cgcacgcagc aaagcgcgcg agggacgcat gctcgcaaca accgtcgccg 5520 tccctcacgc aggcaggccc tgagtcctac agccgacgct taggacaccc tgccgaggcg 5580 gtcgtgccgt catcgatgcc gacatcgatg acggtgcgac cgcctttcgt cgtgcccgga 5640 tgcggctggg ccttcgctcc cgcacggacg agctgagccg cctcggcgag gacggaggtt 5700 acggcatatg tcgtcatttg acgacaaggt ggctgactga ctcgatatag gacaccgcac 5760 gggtcggcgg cgaatctatc gtcgaatcat ccgggcagac gaacgaccat tgtcccgggt 5820 tcgaaggagg agaagacaat gacgtcaacc atgcctgcac cgacagcagc acaggcgaac 5880 gcagacgaga ccgaggtcct cgacgcactc atcgtgggtg gcggattctc ggggcctgta 5940 tctgtcgacc gcctgcgtga agacgggttc aaggtcaagg tctgggacgc cgccggcgga 6000 ttcggcggca tctggtggtg gaactgctac ccgggtgctc gtacggacag caccggacag 6060 atctatcagt tccagtacaa ggacctgtgg aaggacttcg acttcaagga gctctacccc 6120 gacttcaacg gggttcggga gtacttcgag tacgtcgact cgcagctcga cctgtcccgc 6180 gacgtcacat tcaacacctt tgcggagtcc tgcacatggg acgacgctgc caaggagtgg 6240 acggtgcgat cgtcggaagg acgtgagcag cgggcccgtg cggtcatcgt cgccaccggc 6300 ttcggtgcga agcccctcta cccgaacatc gagggcctcg acagcttcga aggcgagtgc 6360 catcacaccg cacgctggcc gcagggtggc ctcgacatga cgggcaagcg agtcgtcgtc 6420 atgggcaccg gtgcttccgg catccaggtc attcaagaag ccgcggcggt tgccgaacac 6480 ctcaccgtct tccagcgcac cccgaacctt gccctgccga tgcggcagca gcggctgtcg 6540 gccgatgaca acgatcgcta ccgagagaac atcgaagatc gtttccaaat ccgtgacaat 6600 tcgtttgccg gattcgactt ctacttcatc ccgcagaacg ccgcggacac ccccgaggac 6660 gagcggaccg cgatctacga aaagatgtgg gacgaaggcg gattcccact gtggctcgga 6720 aacttccagg gactcctcac cgatgaggca gccaaccaca ccttctacaa cttctggcgt 6780 tcgaaggtgc acgatcgtgt gaaggatccc aagaccgccg agatgctcgc accggcgacc 6840 ccaccgcacc cgttcggcgt caagcgtccc tcgctcgaac agaactactt cgacgtatac 6900 aaccaggaca atgtcgatct catcgactcg aatgccaccc cgatcacccg ggtccttccg 6960 aacggggtcg aaaccccgga cggagtcgtc gaatgcgatg tcctcgtgct ggccaccggc 7020 ttcgacaaca acagcggcgg catcaacgcc atcgatatca aagccggcgg gcagctgctg 7080 cgtgacaagt gggcgaccgg cgtggacacc tacatggggc tgtcgacgca cggattcccc 7140 aatctcatgt tcctctacgg cccgcagagc ccttcgggct tctgcaatgg gaccgacttc 7200 ggcggagcgc caggcgatat ggtcgccgac ttcctcatct ggctcaagga caacggcatc 7260 tcgcggttcg aatccaccga agaggtcgag cgggaatggc gcgcccatgt cgacgacatc 7320 ttcgtcaact cgctgttccc caaggcgaag tcctggtact ggggcgccaa cgtccccggc 7380 aagccggcgc agatgctcaa ctattcggag gcgtccccgc atatctagag aagtgggacg 7440 aggtcaacag ccacggctac gccggttttg agttcgatcg tgagcatact gagaaatcgt 7500 gcgaacgtgc tgcctgaggg ctggccattg ggctgaatgc gacttaagtg tgctcagatt 7560 gcatgtctac tcgccagtag cgtgcaatct gagcacactt aactgtcgtt cgcgggcaca 7620 ggtgcctgtt cgtgcaggcg ctgtggcgac tcggccgggt cagtcgtgag attcgggggc 7680 ggccgcctcg gcgcgttcga tgtcctgggc ggcgaacacg cgtccagagc cgggaaagcg 7740 ggcgtcaatc gtccttgcgc aggtattcat gatcttcgtg ccctcatatt cctggcggat 7800 cacccccgct tcgcgcagag tgcggaagtg ataggtcgcc gtggacttcg acaccggcag 7860 ctcgaaggtc gcacacgcat gatcgccgaa agcgtcgttg agtttgcagg cgacggtgcg 7920 gcggaccggg tcggcgaggg cggccaggac ggtgtcgagt ctcatctcgt ccctgctggg 7980 gtggtcgagt gtgcgcatct ggatcctccc atctcgccat cgtgtcggtc agcgtcggtg 8040 gatgtcgtct gaacagccac cgatcacagg tagcgccgta tctctccatt gtacgaaata 8100 tttggtagta cgaaattcat cgtagtaaag tgcgaactcg aagtacgaaa aatctcatac 8160 ttccagccga ctactttcga cgagatcacg aggtgtcatg tctcatctgc tgttcgaacc 8220 gctcacactg cgcggcctga ccttccgcaa tcggatctgg gttccgccca tgtgccagta 8280 ctccgtcgag actctagacg gggtccccgc tccttggcac accgtccact acggtgcgat 8340 ggcccgcggc ggagccggcg ccgtcatcgt cgaagccacc ggagtcgctc cggaggcgcg 8400 catctcggcc aaggatctgg gctggaacga cgaacagcgc gacgccttcg tccccatcgt 8460 cgacttcctc cacacccagg gcgcggccgc cggcatccag ctcgcccacg ccggccgcaa 8520 ggcctcgacc tatccggagt ggggaaccga ccgcgacggc agcctgcccg tcgacgaagg 8580 cggttggcag accgtggctc cgtccgcact ggccttcgac ggcctcgccg aaccgcgagc 8640 actgaccgaa acagagatcg ccgaggtggt cgcggccttc cggtcctcgg cccgccgggc 8700 gatcgaggcc gggttcgact tcgtcgagat ccacgccgca cacggatacc tcctccatga 8760 gttcctgtcg cccctgagca acaaccgcac cgactcctac ggcggatcct tggagaaccg 8820 ggcccgactg ctgctcgaca tcgtcgatgc cacccgcacc gaggtgggcg aggacgttcc 8880 cgtgttcgtg cgcctctccg cgacggactg gacagaaggc gggctcacgc tcgacgacac 8940 agtggaggtc gccggatggc tcaaggaaca cggtgtcgac ctcatcgacg tctcctccgg 9000 cggcaatgtg atggcgtcga ttcccgtcgg tcccggctac cagacgaccc tggccgccgg 9060 cgtgcggcag ggatcggggc tgccgaccgc ggccgtcggc ctcatcagcg aaccgttcca 9120 gggcgagcac attctggcca ccggccaggc cgatgtgatc ctcgtgggcc gtgagtacct 9180 ccgcgatccg aacttcgcgc tgcgcgccgc cgacgccctg cgcttcgaca tcgactaccg 9240 cccggctcag taccaccgcg cgtataagtg agctgagctc aattcgctgg agcggctcgg 9300 cgctcatacg ctgacggccc agttgaagtc gacagcaatg ttcaaatgtg tgctgtccga 9360 cttcaactgg gccgttggcg tctgtcatct gcgcggacag cgctcgccga gggtgagcgt 9420 gtggagatgt ggctgagctc agaacggtcg gttgcagcta ggccaggcct ccgagccaca 9480 ttccgatcgc cgcggccgtc gtggtgagaa cgagggtgcc gagcgcgttg accaggccgg 9540 cggcccagcg acgttcctgg agaagccgga ccgtttcgaa gctcgccgtc gaaaacgtcg 9600 tatagccgcc gaggaatccc gtgccgagca ccaggtgcca ggcttgcgga agcaggttcg 9660 ctccggccag tccggtcagc aggccgagca cgagtgatcc cgagacattg atgatgatcg 9720 ttccccacgg cagggccgtg ctcatgcggg acttgatgag tccgtcgatc agcattcgtg 9780 atgaggcgcc gagtccgccg gcggcggcaa gggcgacgaa gaccagcggc gtcatcgggc 9840 acctcctcga cgcagcgtcg tcgccgtggc gatgccggcg aacgtggcga gaccgccgat 9900 gagtaccgtg cccaccgcgt aggcaatccc gatgccgggg ctgctcgccc cacccggacc 9960 cgcgccgagg cggcccgccg tatcggcggc cagcgcgctg tatgtggtga atccgcccat 10020 gaaaccggtg ccgaccagga tccgcgttcg gcgacgccac ctttcatcgg ggccgctgcg 10080 cgccagggaa tccaacagca ggccgagcag aaacgccccg aggatgttga ccgtgaggat 10140 tgcccacggc acatcgccga ggggcggcag gctcaggctg atcgcctcgc gtgccgcagt 10200 tccgactgcg ccgccgatga acgcgagccc cagataggac aggcgcaggt ggactggccg 10260 ggtcactgtt cgcccgcgcc ggcttgagtc tcggcagcgg gggaagcgcc aggggtcggc 10320 gacgtcgcag gggattcggg gttgcccatg tcgtcggtgc ctgtcgccag cggaacgacg 10380 acgagggggc gatgctggcg ccttgacagt tggatcgcga ccgagccatt gaagaactca 10440 tgcagtgagc cgcgaacacc tgcgcgacgg acgccgagga tgatcatgcg ggcatcgagc 10500 gcctcggcga gccggtcgag ttcctgtgcc ggtgacccgg ccagtgcgcg ggtcgaccag 10560 gcaacattcg tgccttccag ggctacagcg atgcggtcct ggagttcggg gtcgaactcg 10620 gtggctgcct cgtcggtggt gtccggatcg atgggcatcg agagcacgga gccgtcggga 10680 cgagtctcaa cggtgtatcg ggagtcgtcg acgtgggcgc agacgaactc ggcgtccaag 10740 tgggcgacgt agtccgcggc ggcggcgatc acctcggcgg gctgatcggg gacgacgccg 10800 aggatgatgc gggcgcgcgg cggcccgtcg tatatcggat cggggctggc ggtcatggtc 10860 tctcctacct ttcgggcatg ctgaagccgt ccgaggtaag ggactgtttt cgaagacgaa 10920 caccgaaggt tccgcttccg agttgggtac ggcgagcccc accgccgtgc cgcgcagtcg 10980 cgacaccaat attgtgccac aggaccatag cgaaagggcc gtcggacggc cggcatccga 11040 agatggccgg catcccgacg gcccccgctg gggtatcagc gctcgtggga ctcacccttc 11100 gcggatcgtc atcctgctca gtttgtcgcc gtcgatgacg aaggcgaacg atgaccgacc 11160 gttggcgtgc gtggagcgcc aatcgccgat gatggtgacg tcgtttccgt cgacggtgac 11220 tcttcgggcg tgaggacgcc ggttgcaccg atgaattcct tatcgctcca ggccttgatg 11280 gcctcccggc cctggaactc gcgtccccag tcgtcgacag tgccatcggg ggtgaatgcg 11340 tccaggaagc cctggttgtc gtgagcgttg acggtgtcga tgaagccggc gacgggttcg 11400 ggaatctgca ggtctgacat atgtgctcct gtgctgttga gatatgtgct gtcgggatgt 11460 ggttgtcgat c 11471 17 1059 DNA Brevibacterium sp HCU 17 atgaaagcat tcgcaatgaa ggcacagggc gcagcgctcg aagagatcga gttggatcgt 60 ccgaagccca tgggcagaga agttctgctc aaggtgacgc acgccggtgt gtgtcatacc 120 gacacccatg ttcaggacgg cggctacgat ctggggtcac gggggaccct cgatatgtcg 180 accagaggcg tcacctaccc ctgcgtgatg ggccacgaga ccgtcggcga ggtcgtcgaa 240 gtcggcgagg acgtcacaga cgtcgcagtc ggcgacacgt gcctcgcctt cccctggatc 300 gggtgcgggg aatgcggaaa atgcgcccat ggacatgaga acgcctgcga caacggtcgc 360 gctctcggca tcatccagtt cggcggcttc gccgaatacc tgctcctgcc ggatcagcgg 420 tatgccatcg atgtggctgg agtcgatccg gcttgggcgg ccacgctcgc ctgctcgggt 480 gtgacctcgt actcctccgc tcgaaaagcc acagcgacgg tcaatcccga cgaacccatc 540 ggcgtgatgg gagtcggcgg ggtcggcatg atgacagtcg ccgccctcgt cgccctcggc 600 cacaagaaca tcatcgcgat cgacgtctcc gacgagaacc tcgcatccgc gcaggaactc 660 ggcgccacct tgaccgtgaa ttcgaagaat gcgaccagcc acgacctcgt cgaggccgca 720 ggcggacagt tcatcgcaat catcgacttg gtcaacaccg gtgacaccgt cgcgctggcc 780 ttcgatgcgc tctcccgcgc aggcaagatc gtccaggtcg gactgttcgg cggcgagttc 840 gtggtcccga cggcgatcat ggctctcaaa ggtctgaccc tgcagggtaa ctacgtcggc 900 acggtcgaag aagtccgcga ggtcgtcgag ctggcccggc agggttcgct gccgaagctg 960 ccgatcaccg gcggcacgct gaacgtcgac ggcgtcaatg acggtctgga gcggctgcgc 1020 acgggccgag ctcgcggtcg cacggtgctg accccctga 1059 18 352 PRT Brevibacterium sp HCU 18 Met Lys Ala Phe Ala Met Lys Ala Gln Gly Ala Ala Leu Glu Glu Ile 1 5 10 15 Glu Leu Asp Arg Pro Lys Pro Met Gly Arg Glu Val Leu Leu Lys Val 20 25 30 Thr His Ala Gly Val Cys His Thr Asp Thr His Val Gln Asp Gly Gly 35 40 45 Tyr Asp Leu Gly Ser Arg Gly Thr Leu Asp Met Ser Thr Arg Gly Val 50 55 60 Thr Tyr Pro Cys Val Met Gly His Glu Thr Val Gly Glu Val Val Glu 65 70 75 80 Val Gly Glu Asp Val Thr Asp Val Ala Val Gly Asp Thr Cys Leu Ala 85 90 95 Phe Pro Trp Ile Gly Cys Gly Glu Cys Gly Lys Cys Ala His Gly His 100 105 110 Glu Asn Ala Cys Asp Asn Gly Arg Ala Leu Gly Ile Ile Gln Phe Gly 115 120 125 Gly Phe Ala Glu Tyr Leu Leu Leu Pro Asp Gln Arg Tyr Ala Ile Asp 130 135 140 Val Ala Gly Val Asp Pro Ala Trp Ala Ala Thr Leu Ala Cys Ser Gly 145 150 155 160 Val Thr Ser Tyr Ser Ser Ala Arg Lys Ala Thr Ala Thr Val Asn Pro 165 170 175 Asp Glu Pro Ile Gly Val Met Gly Val Gly Gly Val Gly Met Met Thr 180 185 190 Val Ala Ala Leu Val Ala Leu Gly His Lys Asn Ile Ile Ala Ile Asp 195 200 205 Val Ser Asp Glu Asn Leu Ala Ser Ala Gln Glu Leu Gly Ala Thr Leu 210 215 220 Thr Val Asn Ser Lys Asn Ala Thr Ser His Asp Leu Val Glu Ala Ala 225 230 235 240 Gly Gly Gln Phe Ile Ala Ile Ile Asp Leu Val Asn Thr Gly Asp Thr 245 250 255 Val Ala Leu Ala Phe Asp Ala Leu Ser Arg Ala Gly Lys Ile Val Gln 260 265 270 Val Gly Leu Phe Gly Gly Glu Phe Val Val Pro Thr Ala Ile Met Ala 275 280 285 Leu Lys Gly Leu Thr Leu Gln Gly Asn Tyr Val Gly Thr Val Glu Glu 290 295 300 Val Arg Glu Val Val Glu Leu Ala Arg Gln Gly Ser Leu Pro Lys Leu 305 310 315 320 Pro Ile Thr Gly Gly Thr Leu Asn Val Asp Gly Val Asn Asp Gly Leu 325 330 335 Glu Arg Leu Arg Thr Gly Arg Ala Arg Gly Arg Thr Val Leu Thr Pro 340 345 350 19 1761 DNA Brevibacterium sp HCU 19 gttgacttcg acgcgcaggc gcttcctgat tcggcggcta ttcgggccga gatcgatcgg 60 tcatggcgcc gctgtcaggt catcggcgtc gaccgttcgg cacgcgagct gcccttcacc 120 gacgacggca tcccggataa ccgggtgctg ctcgcggcac gtccggttct cgatcgcctc 180 tcgactcagc tccaggacgc tccggtgacc atccttctgg cggaccgtga tgcccgcatc 240 atcgaccgct ggacgggcaa gcacgagctg ctctcccaac tcgacagtgc gaccgtggca 300 ccgggtttcc aattcgctga ggagttcgcg ggcaccaacg gcatcggcac agcactcgag 360 gagcgcaccc cattccgggt caagggtgag gaacatctgc tcgagtccct ccaccgcttc 420 gcctgtgtcg gcgcaccgat cgtccacccg atcaaccggt ccgtcgtcgg catcctcgac 480 atcacgtgcg aaatcggtga tgtcaacgat ctcatggctc cgctcatctc cgccgctgtc 540 tccgatatcg aggagcggct ctacggccag tcctcccgca cggaacgccg tctcctgcgt 600 gaatacgccc aggtcaggcg ctcctcggcg aaggccgtcg tcgccatgag tcccgatacc 660 gtcatcgcca ccccggtggc gtcgagctac ctcgactact ctgatcaggc gatgctgtgg 720 gactgggcga gcggcatcgt ccccgaccgc cccagccaca ccgagactct gcgcttggcc 780 gacggccgag acgtcgaagt cactgcccgc cgggtcagcg atgccgccga gcccctgggc 840 gtggttatgg agctgcgcgc tctcacagag cccgttgccg ggagtggaca tacggcggcg 900 cctgcgctcg ctctgctcac aggtccttcg cgttcgggcg tcgaacgtct gcccggccgc 960 agcctggcca cccggcagct gcagtctcag ctcgatggct tcgcacagca gaccggtccc 1020 gtcctcatca ccggtgagcc cggtgtcggc aaggcccgga ccgccgcgta tctgacccgg 1080 ctctggggct tcgcggacaa tctgctcacg gtcgccggat ccggtctcac tgcagcggat 1140 ctgccccgcc tgcgggcgca gatcgatgag ggctcggccc tgttgatcac gaggatcgat 1200 gaggtccccg ccgaggcggc cgcggaggtc cgcacgctcg tcatcgaaac gaacgaggcc 1260 ggttccccgc tgacggcgac ctcatcgacg gagctgcgcg gcgatgacgc cagcgggctg 1320 agctcacatt tcctgcggag ggcctatgtc tcgcctctgc ggcaccgcac cgacgagatc 1380 gacgatctcg cccgcgtcat actcaccgag catgtctccg gacctcgagc gccgcggctg 1440 cagccggcga cgcggaagtc tctggccgct caccactggc cgggcaacgt gcgcgaactc 1500 gcatccgtcc tcgtctcatc gctgccgaag gccatgagct ccgacatcgg tctcgagcac 1560 ctgcccgccg aataccggac gatcaccagc ggccgtgagc tgacctctct cgagcagacc 1620 gaacgcgaaa ccgtcatccg agtgctcaac gaagcaggcg ggaacaagtc gatcgccgca 1680 gaacagctcg gcatcgctcg ctcgacgctc taccggaagc tgcgcgctct cggcctggag 1740 cagggacgtt tcctcagctg a 1761 20 586 PRT Brevibacterium sp HCU 20 Val Asp Phe Asp Ala Gln Ala Leu Pro Asp Ser Ala Ala Ile Arg Ala 1 5 10 15 Glu Ile Asp Arg Ser Trp Arg Arg Cys Gln Val Ile Gly Val Asp Arg 20 25 30 Ser Ala Arg Glu Leu Pro Phe Thr Asp Asp Gly Ile Pro Asp Asn Arg 35 40 45 Val Leu Leu Ala Ala Arg Pro Val Leu Asp Arg Leu Ser Thr Gln Leu 50 55 60 Gln Asp Ala Pro Val Thr Ile Leu Leu Ala Asp Arg Asp Ala Arg Ile 65 70 75 80 Ile Asp Arg Trp Thr Gly Lys His Glu Leu Leu Ser Gln Leu Asp Ser 85 90 95 Ala Thr Val Ala Pro Gly Phe Gln Phe Ala Glu Glu Phe Ala Gly Thr 100 105 110 Asn Gly Ile Gly Thr Ala Leu Glu Glu Arg Thr Pro Phe Arg Val Lys 115 120 125 Gly Glu Glu His Leu Leu Glu Ser Leu His Arg Phe Ala Cys Val Gly 130 135 140 Ala Pro Ile Val His Pro Ile Asn Arg Ser Val Val Gly Ile Leu Asp 145 150 155 160 Ile Thr Cys Glu Ile Gly Asp Val Asn Asp Leu Met Ala Pro Leu Ile 165 170 175 Ser Ala Ala Val Ser Asp Ile Glu Glu Arg Leu Tyr Gly Gln Ser Ser 180 185 190 Arg Thr Glu Arg Arg Leu Leu Arg Glu Tyr Ala Gln Val Arg Arg Ser 195 200 205 Ser Ala Lys Ala Val Val Ala Met Ser Pro Asp Thr Val Ile Ala Thr 210 215 220 Pro Val Ala Ser Ser Tyr Leu Asp Tyr Ser Asp Gln Ala Met Leu Trp 225 230 235 240 Asp Trp Ala Ser Gly Ile Val Pro Asp Arg Pro Ser His Thr Glu Thr 245 250 255 Leu Arg Leu Ala Asp Gly Arg Asp Val Glu Val Thr Ala Arg Arg Val 260 265 270 Ser Asp Ala Ala Glu Pro Leu Gly Val Val Met Glu Leu Arg Ala Leu 275 280 285 Thr Glu Pro Val Ala Gly Ser Gly His Thr Ala Ala Pro Ala Leu Ala 290 295 300 Leu Leu Thr Gly Pro Ser Arg Ser Gly Val Glu Arg Leu Pro Gly Arg 305 310 315 320 Ser Leu Ala Thr Arg Gln Leu Gln Ser Gln Leu Asp Gly Phe Ala Gln 325 330 335 Gln Thr Gly Pro Val Leu Ile Thr Gly Glu Pro Gly Val Gly Lys Ala 340 345 350 Arg Thr Ala Ala Tyr Leu Thr Arg Leu Trp Gly Phe Ala Asp Asn Leu 355 360 365 Leu Thr Val Ala Gly Ser Gly Leu Thr Ala Ala Asp Leu Pro Arg Leu 370 375 380 Arg Ala Gln Ile Asp Glu Gly Ser Ala Leu Leu Ile Thr Arg Ile Asp 385 390 395 400 Glu Val Pro Ala Glu Ala Ala Ala Glu Val Arg Thr Leu Val Ile Glu 405 410 415 Thr Asn Glu Ala Gly Ser Pro Leu Thr Ala Thr Ser Ser Thr Glu Leu 420 425 430 Arg Gly Asp Asp Ala Ser Gly Leu Ser Ser His Phe Leu Arg Arg Ala 435 440 445 Tyr Val Ser Pro Leu Arg His Arg Thr Asp Glu Ile Asp Asp Leu Ala 450 455 460 Arg Val Ile Leu Thr Glu His Val Ser Gly Pro Arg Ala Pro Arg Leu 465 470 475 480 Gln Pro Ala Thr Arg Lys Ser Leu Ala Ala His His Trp Pro Gly Asn 485 490 495 Val Arg Glu Leu Ala Ser Val Leu Val Ser Ser Leu Pro Lys Ala Met 500 505 510 Ser Ser Asp Ile Gly Leu Glu His Leu Pro Ala Glu Tyr Arg Thr Ile 515 520 525 Thr Ser Gly Arg Glu Leu Thr Ser Leu Glu Gln Thr Glu Arg Glu Thr 530 535 540 Val Ile Arg Val Leu Asn Glu Ala Gly Gly Asn Lys Ser Ile Ala Ala 545 550 555 560 Glu Gln Leu Gly Ile Ala Arg Ser Thr Leu Tyr Arg Lys Leu Arg Ala 565 570 575 Leu Gly Leu Glu Gln Gly Arg Phe Leu Ser 580 585 21 1590 DNA Brevibacterium sp HCU 21 atgacgtcaa ccatgcctgc accgacagca gcacaggcga acgcagacga gaccgaggtc 60 ctcgacgcac tcatcgtggg tggcggattc tcggggcctg tatctgtcga ccgcctgcgt 120 gaagacgggt tcaaggtcaa ggtctgggac gccgccggcg gattcggcgg catctggtgg 180 tggaactgct acccgggtgc tcgtacggac agcaccggac agatctatca gttccagtac 240 aaggacctgt ggaaggactt cgacttcaag gagctctacc ccgacttcaa cggggttcgg 300 gagtacttcg agtacgtcga ctcgcagctc gacctgtccc gcgacgtcac attcaacacc 360 tttgcggagt cctgcacatg ggacgacgct gccaaggagt ggacggtgcg atcgtcggaa 420 ggacgtgagc agcgggcccg tgcggtcatc gtcgccaccg gcttcggtgc gaagcccctc 480 tacccgaaca tcgagggcct cgacagcttc gaaggcgagt gccatcacac cgcacgctgg 540 ccgcagggtg gcctcgacat gacgggcaag cgagtcgtcg tcatgggcac cggtgcttcc 600 ggcatccagg tcattcaaga agccgcggcg gttgccgaac acctcaccgt cttccagcgc 660 accccgaacc ttgccctgcc gatgcggcag cagcggctgt cggccgatga caacgatcgc 720 taccgagaga acatcgaaga tcgtttccaa atccgtgaca attcgtttgc cggattcgac 780 ttctacttca tcccgcagaa cgccgcggac acccccgagg acgagcggac cgcgatctac 840 gaaaagatgt gggacgaagg cggattccca ctgtggctcg gaaacttcca gggactcctc 900 accgatgagg cagccaacca caccttctac aacttctggc gttcgaaggt gcacgatcgt 960 gtgaaggatc ccaagaccgc cgagatgctc gcaccggcga ccccaccgca cccgttcggc 1020 gtcaagcgtc cctcgctcga acagaactac ttcgacgtat acaaccagga caatgtcgat 1080 ctcatcgact cgaatgccac cccgatcacc cgggtccttc cgaacggggt cgaaaccccg 1140 gacggagtcg tcgaatgcga tgtcctcgtg ctggccaccg gcttcgacaa caacagcggc 1200 ggcatcaacg ccatcgatat caaagccggc gggcagctgc tgcgtgacaa gtgggcgacc 1260 ggcgtggaca cctacatggg gctgtcgacg cacggattcc ccaatctcat gttcctctac 1320 ggcccgcaga gcccttcggg cttctgcaat gggaccgact tcggcggagc gccaggcgat 1380 atggtcgccg acttcctcat ctggctcaag gacaacggca tctcgcggtt cgaatccacc 1440 gaagaggtcg agcgggaatg gcgcgcccat gtcgacgaca tcttcgtcaa ctcgctgttc 1500 cccaaggcga agtcctggta ctggggcgcc aacgtccccg gcaagccggc gcagatgctc 1560 aactattcgg aggcgtcccc gcatatctag 1590 22 529 PRT Brevibacterium sp HCU 22 Met Thr Ser Thr Met Pro Ala Pro Thr Ala Ala Gln Ala Asn Ala Asp 1 5 10 15 Glu Thr Glu Val Leu Asp Ala Leu Ile Val Gly Gly Gly Phe Ser Gly 20 25 30 Pro Val Ser Val Asp Arg Leu Arg Glu Asp Gly Phe Lys Val Lys Val 35 40 45 Trp Asp Ala Ala Gly Gly Phe Gly Gly Ile Trp Trp Trp Asn Cys Tyr 50 55 60 Pro Gly Ala Arg Thr Asp Ser Thr Gly Gln Ile Tyr Gln Phe Gln Tyr 65 70 75 80 Lys Asp Leu Trp Lys Asp Phe Asp Phe Lys Glu Leu Tyr Pro Asp Phe 85 90 95 Asn Gly Val Arg Glu Tyr Phe Glu Tyr Val Asp Ser Gln Leu Asp Leu 100 105 110 Ser Arg Asp Val Thr Phe Asn Thr Phe Ala Glu Ser Cys Thr Trp Asp 115 120 125 Asp Ala Ala Lys Glu Trp Thr Val Arg Ser Ser Glu Gly Arg Glu Gln 130 135 140 Arg Ala Arg Ala Val Ile Val Ala Thr Gly Phe Gly Ala Lys Pro Leu 145 150 155 160 Tyr Pro Asn Ile Glu Gly Leu Asp Ser Phe Glu Gly Glu Cys His His 165 170 175 Thr Ala Arg Trp Pro Gln Gly Gly Leu Asp Met Thr Gly Lys Arg Val 180 185 190 Val Val Met Gly Thr Gly Ala Ser Gly Ile Gln Val Ile Gln Glu Ala 195 200 205 Ala Ala Val Ala Glu His Leu Thr Val Phe Gln Arg Thr Pro Asn Leu 210 215 220 Ala Leu Pro Met Arg Gln Gln Arg Leu Ser Ala Asp Asp Asn Asp Arg 225 230 235 240 Tyr Arg Glu Asn Ile Glu Asp Arg Phe Gln Ile Arg Asp Asn Ser Phe 245 250 255 Ala Gly Phe Asp Phe Tyr Phe Ile Pro Gln Asn Ala Ala Asp Thr Pro 260 265 270 Glu Asp Glu Arg Thr Ala Ile Tyr Glu Lys Met Trp Asp Glu Gly Gly 275 280 285 Phe Pro Leu Trp Leu Gly Asn Phe Gln Gly Leu Leu Thr Asp Glu Ala 290 295 300 Ala Asn His Thr Phe Tyr Asn Phe Trp Arg Ser Lys Val His Asp Arg 305 310 315 320 Val Lys Asp Pro Lys Thr Ala Glu Met Leu Ala Pro Ala Thr Pro Pro 325 330 335 His Pro Phe Gly Val Lys Arg Pro Ser Leu Glu Gln Asn Tyr Phe Asp 340 345 350 Val Tyr Asn Gln Asp Asn Val Asp Leu Ile Asp Ser Asn Ala Thr Pro 355 360 365 Ile Thr Arg Val Leu Pro Asn Gly Val Glu Thr Pro Asp Gly Val Val 370 375 380 Glu Cys Asp Val Leu Val Leu Ala Thr Gly Phe Asp Asn Asn Ser Gly 385 390 395 400 Gly Ile Asn Ala Ile Asp Ile Lys Ala Gly Gly Gln Leu Leu Arg Asp 405 410 415 Lys Trp Ala Thr Gly Val Asp Thr Tyr Met Gly Leu Ser Thr His Gly 420 425 430 Phe Pro Asn Leu Met Phe Leu Tyr Gly Pro Gln Ser Pro Ser Gly Phe 435 440 445 Cys Asn Gly Thr Asp Phe Gly Gly Ala Pro Gly Asp Met Val Ala Asp 450 455 460 Phe Leu Ile Trp Leu Lys Asp Asn Gly Ile Ser Arg Phe Glu Ser Thr 465 470 475 480 Glu Glu Val Glu Arg Glu Trp Arg Ala His Val Asp Asp Ile Phe Val 485 490 495 Asn Ser Leu Phe Pro Lys Ala Lys Ser Trp Tyr Trp Gly Ala Asn Val 500 505 510 Pro Gly Lys Pro Ala Gln Met Leu Asn Tyr Ser Glu Ala Ser Pro His 515 520 525 Ile 23 339 DNA Brevibacterium sp HCU 23 atgcgcacac tcgaccaccc cagcagggac gagatgagac tcgacaccgt cctggccgcc 60 ctcgccgacc cggtccgccg caccgtcgcc tgcaaactca acgacgcttt cggcgatcat 120 gcgtgtgcga ccttcgagct gccggtgtcg aagtccacgg cgacctatca cttccgcact 180 ctgcgcgaag cgggggtgat ccgccaggaa tatgagggca cgaagatcat gaatacctgc 240 gcaaggacga ttgacgcccg ctttcccggc tctggacgcg tgttcgccgc ccaggacatc 300 gaacgcgccg aggcggccgc ccccgaatct cacgactga 339 24 112 PRT Brevibacterium sp HCU 24 Met Arg Thr Leu Asp His Pro Ser Arg Asp Glu Met Arg Leu Asp Thr 1 5 10 15 Val Leu Ala Ala Leu Ala Asp Pro Val Arg Arg Thr Val Ala Cys Lys 20 25 30 Leu Asn Asp Ala Phe Gly Asp His Ala Cys Ala Thr Phe Glu Leu Pro 35 40 45 Val Ser Lys Ser Thr Ala Thr Tyr His Phe Arg Thr Leu Arg Glu Ala 50 55 60 Gly Val Ile Arg Gln Glu Tyr Glu Gly Thr Lys Ile Met Asn Thr Cys 65 70 75 80 Ala Arg Thr Ile Asp Ala Arg Phe Pro Gly Ser Gly Arg Val Phe Ala 85 90 95 Ala Gln Asp Ile Glu Arg Ala Glu Ala Ala Ala Pro Glu Ser His Asp 100 105 110 25 1074 DNA Brevibacterium sp HCU 25 atgtctcatc tgctgttcga accgctcaca ctgcgcggcc tgaccttccg caatcggatc 60 tgggttccgc ccatgtgcca gtactccgtc gagactctag acggggtccc cgctccttgg 120 cacaccgtcc actacggtgc gatggcccgc ggcggagccg gcgccgtcat cgtcgaagcc 180 accggagtcg ctccggaggc gcgcatctcg gccaaggatc tgggctggaa cgacgaacag 240 cgcgacgcct tcgtccccat cgtcgacttc ctccacaccc agggcgcggc cgccggcatc 300 cagctcgccc acgccggccg caaggcctcg acctatccgg agtggggaac cgaccgcgac 360 ggcagcctgc ccgtcgacga aggcggttgg cagaccgtgg ctccgtccgc actggccttc 420 gacggcctcg ccgaaccgcg agcactgacc gaaacagaga tcgccgaggt ggtcgcggcc 480 ttccggtcct cggcccgccg ggcgatcgag gccgggttcg acttcgtcga gatccacgcc 540 gcacacggat acctcctcca tgagttcctg tcgcccctga gcaacaaccg caccgactcc 600 tacggcggat ccttggagaa ccgggcccga ctgctgctcg acatcgtcga tgccacccgc 660 accgaggtgg gcgaggacgt tcccgtgttc gtgcgcctct ccgcgacgga ctggacagaa 720 ggcgggctca cgctcgacga cacagtggag gtcgccggat ggctcaagga acacggtgtc 780 gacctcatcg acgtctcctc cggcggcaat gtgatggcgt cgattcccgt cggtcccggc 840 taccagacga ccctggccgc cggcgtgcgg cagggatcgg ggctgccgac cgcggccgtc 900 ggcctcatca gcgaaccgtt ccagggcgag cacattctgg ccaccggcca ggccgatgtg 960 atcctcgtgg gccgtgagta cctccgcgat ccgaacttcg cgctgcgcgc cgccgacgcc 1020 ctgcgcttcg acatcgacta ccgcccggct cagtaccacc gcgcgtataa gtga 1074 26 357 PRT Brevibacterium sp HCU 26 Met Ser His Leu Leu Phe Glu Pro Leu Thr Leu Arg Gly Leu Thr Phe 1 5 10 15 Arg Asn Arg Ile Trp Val Pro Pro Met Cys Gln Tyr Ser Val Glu Thr 20 25 30 Leu Asp Gly Val Pro Ala Pro Trp His Thr Val His Tyr Gly Ala Met 35 40 45 Ala Arg Gly Gly Ala Gly Ala Val Ile Val Glu Ala Thr Gly Val Ala 50 55 60 Pro Glu Ala Arg Ile Ser Ala Lys Asp Leu Gly Trp Asn Asp Glu Gln 65 70 75 80 Arg Asp Ala Phe Val Pro Ile Val Asp Phe Leu His Thr Gln Gly Ala 85 90 95 Ala Ala Gly Ile Gln Leu Ala His Ala Gly Arg Lys Ala Ser Thr Tyr 100 105 110 Pro Glu Trp Gly Thr Asp Arg Asp Gly Ser Leu Pro Val Asp Glu Gly 115 120 125 Gly Trp Gln Thr Val Ala Pro Ser Ala Leu Ala Phe Asp Gly Leu Ala 130 135 140 Glu Pro Arg Ala Leu Thr Glu Thr Glu Ile Ala Glu Val Val Ala Ala 145 150 155 160 Phe Arg Ser Ser Ala Arg Arg Ala Ile Glu Ala Gly Phe Asp Phe Val 165 170 175 Glu Ile His Ala Ala His Gly Tyr Leu Leu His Glu Phe Leu Ser Pro 180 185 190 Leu Ser Asn Asn Arg Thr Asp Ser Tyr Gly Gly Ser Leu Glu Asn Arg 195 200 205 Ala Arg Leu Leu Leu Asp Ile Val Asp Ala Thr Arg Thr Glu Val Gly 210 215 220 Glu Asp Val Pro Val Phe Val Arg Leu Ser Ala Thr Asp Trp Thr Glu 225 230 235 240 Gly Gly Leu Thr Leu Asp Asp Thr Val Glu Val Ala Gly Trp Leu Lys 245 250 255 Glu His Gly Val Asp Leu Ile Asp Val Ser Ser Gly Gly Asn Val Met 260 265 270 Ala Ser Ile Pro Val Gly Pro Gly Tyr Gln Thr Thr Leu Ala Ala Gly 275 280 285 Val Arg Gln Gly Ser Gly Leu Pro Thr Ala Ala Val Gly Leu Ile Ser 290 295 300 Glu Pro Phe Gln Gly Glu His Ile Leu Ala Thr Gly Gln Ala Asp Val 305 310 315 320 Ile Leu Val Gly Arg Glu Tyr Leu Arg Asp Pro Asn Phe Ala Leu Arg 325 330 335 Ala Ala Asp Ala Leu Arg Phe Asp Ile Asp Tyr Arg Pro Ala Gln Tyr 340 345 350 His Arg Ala Tyr Lys 355 27 2200 DNA Brevibacterium sp HCU 27 gctgagctca attcgctgga gcggctcggc gctcatacgc tgacggccca gttgaagtcg 60 acagcaatgt tcaaatgtgt gctgtccgac ttcaactggg ccgttggcgt ctgtcatctg 120 cgcggacagc gctcgccgag ggtgagcgtg tggagatgtg gctgagctca gaacggtcgg 180 ttgcagctag gccaggcctc cgagccacat tccgatcgcc gcggccgtcg tggtgagaac 240 gagggtgccg agcgcgttga ccaggccggc ggcccagcga cgttcctgga gaagccggac 300 cgtttcgaag ctcgccgtcg aaaacgtcgt atagccgccg aggaatcccg tgccgagcac 360 caggtgccag gcttgcggaa gcaggttcgc tccggccagt ccggtcagca ggccgagcac 420 gagtgatccc gagacattga tgatgatcgt tccccacggc agggccgtgc tcatgcggga 480 cttgatgagt ccgtcgatca gcattcgtga tgaggcgccg agtccgccgg cggcggcaag 540 ggcgacgaag accagcggcg tcatcgggca cctcctcgac gcagcgtcgt cgccgtggcg 600 atgccggcga acgtggcgag accgccgatg agtaccgtgc ccaccgcgta ggcaatcccg 660 atgccggggc tgctcgcccc acccggaccc gcgccgaggc ggcccgccgt atcggcggcc 720 agcgcgctgt atgtggtgaa tccgcccatg aaaccggtgc cgaccaggat ccgcgttcgg 780 cgacgccacc tttcatcggg gccgctgcgc gccagggaat ccaacagcag gccgagcaga 840 aacgccccga ggatgttgac cgtgaggatt gcccacggca catcgccgag gggcggcagg 900 ctcaggctga tcgcctcgcg tgccgcagtt ccgactgcgc cgccgatgaa cgcgagcccc 960 agataggaca ggcgcaggtg gactggccgg gtcactgttc gcccgcgccg gcttgagtct 1020 cggcagcggg ggaagcgcca ggggtcggcg acgtcgcagg ggattcgggg ttgcccatgt 1080 cgtcggtgcc tgtcgccagc ggaacgacga cgagggggcg atgctggcgc cttgacagtt 1140 ggatcgcgac cgagccattg aagaactcat gcagtgagcc gcgaacacct gcgcgacgga 1200 cgccgaggat gatcatgcgg gcatcgagcg cctcggcgag ccggtcgagt tcctgtgccg 1260 gtgacccggc cagtgcgcgg gtcgaccagg caacattcgt gccttccagg gctacagcga 1320 tgcggtcctg gagttcgggg tcgaactcgg tggctgcctc gtcggtggtg tccggatcga 1380 tgggcatcga gagcacggag ccgtcgggac gagtctcaac ggtgtatcgg gagtcgtcga 1440 cgtgggcgca gacgaactcg gcgtccaagt gggcgacgta gtccgcggcg gcggcgatca 1500 cctcggcggg ctgatcgggg acgacgccga ggatgatgcg ggcgcgcggc ggcccgtcgt 1560 atatcggatc ggggctggcg gtcatggtct ctcctacctt tcgggcatgc tgaagccgtc 1620 cgaggtaagg gactgttttc gaagacgaac accgaaggtt ccgcttccga gttgggtacg 1680 gcgagcccca ccgccgtgcc gcgcagtcgc gacaccaata ttgtgccaca ggaccatagc 1740 gaaagggccg tcggacggcc ggcatccgaa gatggccggc atcccgacgg cccccgctgg 1800 ggtatcagcg ctcgtgggac tcacccttcg cggatcgtca tcctgctcag tttgtcgccg 1860 tcgatgacga aggcgaacga tgaccgaccg ttggcgtgcg tggagcgcca atcgccgatg 1920 atggtgacgt cgtttccgtc gacggtgact cttcgggcgt gaggacgccg gttgcaccga 1980 tgaattcctt atcgctccag gccttgatgg cctcccggcc ctggaactcg cgtccccagt 2040 cgtcgacagt gccatcgggg gtgaatgcgt ccaggaagcc ctggttgtcg tgagcgttga 2100 cggtgtcgat gaagccggcg acgggttcgg gaatctgcag gtctgacata tgtgctcctg 2160 tgctgttgag atatgtgctg tcgggatgtg gttgtcgatc 2200 28 19 DNA Artificial Sequence Description of Artificial Sequence primer 28 29 18 DNA Artificial Sequence Description of Artificial Sequence primer 29 30 18 DNA Artificial Sequence Description of Artificial Sequence primer 30 31 19 DNA Artificial Sequence Description of Artificial Sequence primer 31 32 15 DNA Artificial Sequence Description of Artificial Sequence primer 32 33 20 DNA Artificial Sequence Description of Artificial Sequence primer 33 34 16 DNA Artificial Sequence Description of Artificial Sequence primer 34 35 18 DNA Artificial Sequence Description of Artificial Sequence primer 35 36 19 DNA Artificial Sequence Description of Artificial Sequence primer 36 37 20 DNA Artificial Sequence Description of Artificial Sequence primer 37 38 17 DNA Artificial Sequence Description of Artificial Sequence primer 38 39 18 DNA Artificial Sequence Description of Artificial Sequence primer 39 40 25 DNA Artificial Sequence Description of Artificial Sequence primer 40 41 32 DNA Artificial Sequence Description of Artificial Sequence primer 41 42 20 DNA Artificial Sequence Description of Artificial Sequence primer 42 43 30 DNA Artificial Sequence Description of Artificial Sequence primer 43 44 26 DNA Artificial Sequence Description of Artificial Sequence primer 44 45 24 DNA Artificial Sequence Description of Artificial Sequence primer 45 46 19 DNA Artificial Sequence Description of Artificial Sequence primer 46 47 23 DNA Artificial Sequence Description of Artificial Sequence primer 47 48 19 DNA Artificial Sequence Description of Artificial Sequence primer 48 49 1388 DNA Brevibacterium sp HCU 49 cgcccttgag tttgatcctg gctcaggacg aacgctggct gcgtgcttaa cacatgcaag 60 tcgaacgctg aagccgacag cttgctgttg gtggatgagt ggcgaacggg tgagtaacac 120 gtgagtaacc tgcccctgat ttcgggataa gcctgggaaa ctgggtctaa taccggatac 180 gaccacctga cgcatgttgg gtggtggaaa gtttttcgat cggggatggg ctcgcggcct 240 atcagcttgt tggtggggta atggcctacc aaggcgacga cgggtagccg gcctgagagg 300 gcgaccggcc acactgggac tgagacacgg cccagactcc tacgggaggc agcagtgggg 360 aatattgcac aatgggggaa accctgatgc agcgacgcag cgtgcgggat gacggccttc 420 gggttgtaaa ccgctttcag cagggaagaa gcgaaagtga cggtacctgc agaagaagta 480 ccggctaact acgtgccagc agccgcggta atacgtaggg tacgagcgtt gtccggaatt 540 attgggcgta aagagctcgt aggtggttgg tcacgtctgc tgtggaaacg caacgcttaa 600 cgttgcgcgt gcagtgggta cgggctgact agagtgcagt aggggagtct ggaattcctg 660 gtgtagcggt gaaatgcgca gatatcagga ggaacaccgg tggcgaaggc gggactctgg 720 gctgtaactg acactgagga gcgaaagcat ggggagcgaa caggattaga taccctggta 780 gtccatgccg taaacgttgg gcactaggtg tgggggacat tccacgttct ccgcgccgta 840 gctaacgcat taagtgcccc gcctggggag tacggtcgca aggctaaaac tcaaaggaat 900 tgacgggggc ccgcacaagc ggcggagcat gcggattaat tcgatgcaac gcgaagaacc 960 ttaccaaggc ttgacataca ctggaccgtt ctggaaacag ttcttctctt tggagctggt 1020 gtacaggtgg tgcatggttg tcgtcagctc gtgtcgtgag atgttgggtt aagtcccgca 1080 acgagcgcaa ccctcgttct atgttgccag cacgtgatgg tgggaactca taggagactg 1140 ccggggtcaa ctcggaggaa ggtggggatg acgtcaaatc atcatgccct ttatgtcttg 1200 ggcttcacgc atgctacaat ggctggtaca gagagaggcg aacccgtgag ggtgagcgaa 1260 tcccttaaag ccagtctcag ttcggatcgt agtctgcaat tcgactacgt gaagtcggag 1320 tcgctagtaa tcgcagatca gcaacgctgc ggtgaatacg ttcccgggcc ttgtacacac 1380 cgcccgta 1388 

What is claimed is:
 1. An isolated nucleic acid fragment encoding an adipic acid synthesizing protein selected from the group consisting of: (a) an isolated nucleic acid molecule encoding the amino acid sequence set forth in SEQ ID NO:2, SEQ ID NO:4, SEQ ID NO:6, SEQ ID NO:8, SEQ ID NO:12, SEQ ID NO:14, SEQ ID NO:18, SEQ ID NO:20, SEQ ID NO:22, and SEQ ID NO:24; (b) an isolated nucleic acid molecule that hybridizes with (a) under the following hybridization conditions: 0.1× SSC, 0.1% SDS at 65° C.; and washed with 2× SSC, 0.1% SDS followed by 0.1× SSC, 0.1% SDS; and (c) an isolated nucleic acid molecule that is completely complementary to (a) or (b).
 2. The isolated nucleic acid fragment of claim 1 selected from the group consisting of SEQ ID NO:1, SEQ ID NO:3, SEQ ID NO:5, SEQ ID NO:7, SEQ ID NO:11, SEQ ID NO:13, SEQ ID NO:17, SEQ ID NO:19, SEQ ID NO:21, and SEQ ID NO:23.
 3. A polypeptide encoded by the isolated nucleic acid fragment of claim
 1. 4. The polypeptide of claim 3 selected from the group consisting of SEQ ID NO:2, SEQ ID NO:4, SEQ ID NO:6, SEQ ID NO:8, SEQ ID NO:12, SEQ ID NO:14, SEQ ID NO:18, SEQ ID NO:20, SEQ ID NO:22, and SEQ ID NO:24.
 5. A chimeric gene comprising the isolated nucleic acid fragment of claim 1 operably linked to suitable regulatory sequences.
 6. A transformed host cell comprising a host cell and the chimeric gene of claim
 5. 7. The transformed host cell of claim 6 wherein the host cell is selected from the group consisting of bacteria, yeast and filamentous fungi.
 8. The transformed host cell of claim 6 wherein the host cell is selected from the group of genera consisting of Escherichia, Bacillus, Brevibacterium, Corynebacterium, Mycobacterium, Rhodococcus, Arthrobacter, Nocardia, Streptomyces, and Actinomyces.
 9. A method of obtaining a nucleic acid fragment encoding all or a substantial portion of the amino acid sequence encoding an adipic acid synthesizing protein comprising: (a) probing a genomic library with the nucleic acid fragment of claim 1; (b) identifying a cDNA clone that hybridizes with the nucleic acid fragment of claim 1; and (c) sequencing the genomic fragment that comprises the clone identified in step (b), wherein the sequenced genomic fragment encodes all or substantially all of the amino acid sequence encoding an adipic acid synthesizing enzyme.
 10. A method of obtaining a nucleic acid fragment encoding all or a substantial portion of the amino acid sequence encoding an adipic acid synthesizing protein comprising: (a) synthesizing at least one oligonucleotide primer corresponding to a portion of the sequence selected from the group consisting of SEQ ID NO:1, SEQ ID NO:3, SEQ ID NO:5, SEQ ID NO:7, SEQ ID NO:11, SEQ ID NO:13, SEQ ID NO:17, SEQ ID NO:19, SEQ ID NO:21, and SEQ ID NO:23; (b) amplifying an insert present in a cloning vector using the oligonucleotide primer of step (a), wherein the amplified insert encodes a portion of an amino acid sequence encoding an adipic acid synthesizing enzyme.
 11. The product of the method of claims 9 or
 10. 12. A method for the production of adipic acid comprising: contacting a transformed host cell under suitable growth conditions with an effective amount of substrate selected from the group consisting of, cyclohexanol, cyclohexanone, 1-caprolactone, 6-hydroxy hexanoic acid, 6-aldehyde and hexanoic acid, whereby adipic acid is produced, said transformed host cell containing the nucleic acid fragments as set forth in SEQ ID NO:15 and SEQ ID NO:16.
 13. A method for the production of cyclohexanone comprising: contacting a transformed cell with an effective amount of cyclohexanol whereby cyclohexanone is produced, the transformed cell comprising a nucleic acid fragment encoding the polypeptide selected from the group consisting of, SEQ ID NO:12 and SEQ ID NO:14 operably linked to suitable regulatory sequences.
 14. A method for the production of ε-caprolactone comprising: contacting a transformed cell with an effective amount of cyclohexanone whereby ε-caprolactone is produced, the transformed cell comprising a nucleic acid fragment encoding the polypeptide selected from the group consisting of, SEQ ID NO:6 and SEQ ID NO:22 operably linked to suitable regulatory sequences.
 15. A method for the production of 6-hydroxy hexanoic acid comprising: contacting a transformed cell with an effective amount of ε-caprolactone whereby 6-hydroxy hexanoic acid is produced, the transformed cell comprising a nucleic acid fragment encoding the polypeptide as set forth in, SEQ ID NO:4 operably linked to suitable regulatory sequences.
 16. A method for the production of 6-aldehyde hexanoic acid comprising: contacting a transformed cell with an effective amount of 6-hydroxy hexanoic acid whereby 6-aldehyde hexanoic acid is produced, the transformed cell comprising a nucleic acid fragment encoding the polypeptide selected from the group consisting of SEQ ID NO:18 and SEQ ID NO:8, operably linked to suitable regulatory sequences.
 17. A method for the oxidation of a cyclohexanone derivative comprising: contacting a transformed cell with an effective amount of a cyclohexanone derivative whereby oxidation of the derivative occurs, the transformed cell comprising a nucleic acid fragment encoding the polypeptide selected from the group consisting of SEQ ID NO:6 and SEQ ID NO:22 operably linked to suitable regulatory sequences.
 18. The method of claim 17 wherein the cyclohexanone derivative is selected from the group consisting of, cyclobutanone, cyclopentanone, 2-methylcyclopentanone, 2-methylcyclohexanone, cyclohex-2-ene-1-one, 2-(cyclohex-1-enyl)cyclohexanone, 1,2-cyclohexanedione, 1,3-cyclohexanedione, and 1,4-cyclohexanedione.
 19. A transformed host cell transformed with the nucleic acid fragment of claim
 1. 20. An isolated nucleic acid fragment encoding adipic acid synthesizing proteins selected from the group consisting of: (a) an isolated nucleic acid molecule selected from the group consisting of SEQ ID NO:15 and SEQ ID NO:16; (b) an isolated nucleic acid molecule that hybridizes with (a) under the following hybridization conditions: 0.1× SSC, 0.1% SDS at 65° C.; and washed with 2× SSC, 0.1% SDS followed by 0.1× SSC, 0.1% SDS; (c) an isolated nucleic acid molecule that is completely complementary to (a) or (b).
 21. A Brevibacterium sp. comprising the 16s rDNA sequence as set forth in SEQ ID NO:49. 